candidate miRBase miRNAs
miRNAknown_randfoldOK (13 loci)
cbr-mir-788
| absolute | AF16 |
| cbr-mir-788 5arm | 3 |
| normalized | AF16 |
| cbr-mir-788 5arm | 0.008 |
block4650 (miRBase cbr-mir-788) [miRNAknown_randfoldOK]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| miRBase cbr-mir-788 | 0.001 | no | no | 0.46/0.50 | 21/26/0.75 | 0.0 | 1.7 | 3 | 0 | 1 | 0 | 9 | 4 | 5arm | 1 | nd | 0.19 | 3 | 3 | 1 | na | na |
| Member of family miR-788 (seed CCGCUUC): cbr-mir-788, sblock19_novel |
| reads | miRBase family seed | ||
| seed | ------------------------------CCGCUUC---------------------------------------------------------------------------------- | 3 | miR-788 |
| len | cloning frequencies | ||
| AF16 | |||
| -----------------------------TCCGCTTCTCAATGCTCCAT--T------------------------------------------------------------------- | 21 | 1 | |
| -----------------------------TCCGCTTCTCAATGCTCCAT--TTG----------------------------------------------------------------- | 23 | 1 | |
| -----------------------------TCCGCTTCTCAATGCTCCAT--TTGC---------------------------------------------------------------- | 24 | 1 | |
| cbr-miR-788 | -----------------------------TCCGCTTCTCAATGCTCCAT--TTGCAA-------------------------------------------------------------- | 26 | - |
| cbriggsae | --------------------ACTAACTTTTCCGCTTCTCAATGCTCCAT--TTGCAAAATCAAATTGATTTTCTTGCAAATGGGATGAGAACC--GGAAACGTT--TGA---------- | ||
| celegans | TTACAAATTTTCAGCTGGAAGCTCACTTTTCCGCTTCTAACT--TCCAT--TTGCAGAGTTCAAGTAAT----CTGGAAAT-GGATTAGAATCGTGGAAAAGTTAGTGAATAGC----- | ||
| cbrenneri | -----------------------------TCCGCTTCT------TCAATCCTTCCAGGAACAGAACAATCAAATTAGTGATATCATCTGCATT-TGGCGAC-----TGGAAAGTGTA-- | ||
| ppacificus | ---------------TGGGGGCTGACTCTCCCGCTTCGCCCTGCTATCTCGCCGGTCAGACAGCGCGAG-------------------AGAGCATGGCGAA-----CGGAGAGAGTCAG | ||
| ******* * * * * ** * * | |||
| ----- ----------------------------- ------------------------------------------ --------- --- ----- | NM_004119 | ||
| ----- ----------------------------- ------------------------------------------ --------- --- ----- | NM_026450 | ||
| ----- ----------------------------- ------------------------------------------ --------- --- ----- | NM_001011629 | ||
| ----- ----------------------------- ------------------------------------------ --------- --- ----- | NM_001009837 | ||
| +++++ +++++++++++++++++++++++++++++ ++++++++++++++++++++++++++++++++++++++++++ +++++++++ +++ +++++ | NM_064155 | ||
| +++++ +++++++++++++++++++++++++++++ ++++++++++++++++++++++++++++++++++++++++++ +++++++++ +++ +++++ | NM_001030661 | ||
| +++++ +++++++++++++++++++++++++++++ ++++++++++++++++++++++++++++++++++++++++++ +++++++++ +++ +++++ | NM_022731 | ||
| +++++ +++++++++++++++++++++++++++++ ++++++++++++++++++++++++++++++++++++++++++ +++++++++ +++ +++++ | NM_001109087 | ||
| cbriggsae | .(.(((.((((((.((((((...(.(((( ((((((((((.....))))...))))))))))).)))))).) ))))).))) .). | 1.000 -31.60 | |
| celegans | .............((((...(((.((((((((((((((((.. ((((( ((.((((..........) ))).)))) )))))))))..)))))))))).)))...)))) | 0.998 -38.40 | |
| cbrenneri | ..(((((.( (((.((...(((((..((((...((((......))))....))))..)) ))).)). ))))))))).. | 0.961 -15.40 | |
| ppacificus | ......((((((((((((.((((((.((((.((((((..((...))...))))) ).)))).)))))) ))).))))))))) | 1.000 -46.30 |
| cbriggsae | chromosome:chrX:16579528:16579610:-1 | Opposite_strand|Intronic_coding|NM_004119|FLT3 ## Opposite_strand|Intronic_non-coding|NM_026450|Zfp169 ## Same_strand|Intronic_non-coding|NM_064155|Y17G7B.3 ## {Repeats: no} ## {MIR: cbr-mir-788} |
| celegans | chromosome:chrX:8485227:8485331:-1 | intergenic ## {MIR: cel-mir-788} |
| cbrenneri | chromosome:chrUn:1087656:1087778:1 | Opposite_strand|Boundary_coding|NM_078847 ## Opposite_strand|Intronic_coding|NM_153473 ## Opposite_strand|Exonic_coding|NM_076019 |
| ppacificus | chromosome:chrUn:28988774:28988853:-1 | intergenic |
cbr-mir-248
| absolute | AF16 |
| cbr-mir-248 3arm | 1 |
| normalized | AF16 |
| cbr-mir-248 3arm | 0.003 |
block4850 (miRBase cbr-mir-248) [miRNAknown_randfoldOK]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| miRBase cbr-mir-248 | 0.007 | no | no | 0.52/0.57 | 23/23/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 21 | 5 | 3arm | 1 | nd | 0.26 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------------------------------UACACGU---------------------------------------------------------- | 1 | novel |
| seed | ---------------------------------------------------------------------------------ACACGUG--------------------------------------------------------- | 0 | miR-248 |
| len | cloning frequencies | ||
| AF16 | |||
| -------------------------------------------------------------------------------GTACACGTGCTCGGATAACGCTC------------------------------------------- | 23 | 1 | |
| cbr-miR-248 | --------------------------------------------------------------------------------TACACGTGCTCGGATAACGCTCA------------------------------------------ | 23 | - |
| cbriggsae | -----TGCAAACTGATAT---------------TCACGATAAGCGCTATCCTTCCGTTGTATTCAAGCTTGGTTGTCGAGTACACGTGCTCGGATAACGCTCATCGAGTCTGATCGGTTATGTT--------------------- | ||
| cremanei | ------ATTTGCTAGTAT--TTTTTGGCAGAGATTACGATTAGCGATATCCAGCCGTTGTATTCAATAGCGCA-TTTGAGTACACGTGCACGGATA-CGCTCATCGTTTTTGTATTGCCACTTCGA---TTGAGTAAGT------ | ||
| celegans | ----------------------------------------AAGCGGTATCCAGCCGATGTTTTCAATACTGCA-TTTGAATACACGTGCACGGATAACGCTC------------------------------------------- | ||
| cbrenneri | TATTATAACTTCTGGTATTTTTCTTGGCAGTTATCACGATCAGCGCTATCCAGCCGTTGTAATCAAGAACGGAGGTTGACTACACGTGCACGGATAACGCTCATTGTCATAG-GTTGCCATTTTTAAAGTTAAGAAGATATGATA | ||
| cjaponica | --------------------------GCTTCCATTACGATTAGCGCTATCCAGCCGAAGTATTCTAGAAAAGA-TTCGAGTACACGTGCACGGATAGTGCTCATTGTTTTTG-----------------GAGAGCACGAAATTCA | ||
| **** ***** *** ** ** * * ** ********* ****** **** | |||
| +++++ +++++++++++++ +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ +++++ | NM_001087279 | ||
| ----- ------------- ------------------------------------------------------------------------------------------- ----- | NM_001046332 | ||
| cbriggsae | .((((((((((.. .(.((((.((((.(((((..((((.((((((..((......)).))))))))).)...))))).)))).)))).)....))))))).))). | 1.000 -32.70 | |
| cremanei | (((((((..... ....((((((.((..(((((.((((.(((((.((((.(((((((((....... .))))))))))).))..))))) )))).)))))..))...))))))...... ...))))))) | 0.999 -44.37 | |
| celegans | .((((.(((((.((((.(((.(((((....... .))))).))))).))..))))).)))). | 0.997 -20.90 | |
| cbrenneri | (((((((.(((((...(((((...(((((..(((.(((((.((((.(((((.((((.((((.((((.........)))).)))))).))..))))).)))).))))).))). ..))))).....)))))..))))).))))))) | 0.996 -43.30 | |
| cjaponica | (((((((..(((((.((((((((((.((((..((((((..(((.... ))))))))).)).))..)))))))))).)))))...)) )).))).......... | 0.944 -37.60 |
| cbriggsae | chromosome:chrX:4610294:4610397:1 | Same_strand|Intronic_non-coding|NM_001087279|fbxl5 ## Opposite_strand|Intronic_non-coding|NM_001046332|CDC42 ## {Repeats: no} ## {MIR: cbr-mir-248} |
| cremanei | chromosome:chrUn:103926403:103926528:1 | intergenic |
| celegans | chromosome:chrX:2262341:2262484:-1 | intergenic ## {MIR: cel-mir-248} |
| cbrenneri | chromosome:chrUn:1122527:1122670:1 | Opposite_strand|Intronic_coding|NM_001107657 |
| cjaponica | chromosome:chrUn:6737767:6737867:-1 | intergenic |
cbr-mir-359
| absolute | AF16 |
| cbr-mir-359 3arm | 1 |
| normalized | AF16 |
| cbr-mir-359 3arm | 0.003 |
block4919 (miRBase cbr-mir-359) [miRNAknown_randfoldOK]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| miRBase cbr-mir-359 | 0.001 | no | no | 0.45/0.50 | 20/22/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 11 | 3 | 3arm | 1 | nd | 0.25 | 1 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------------------------------------CACUGGU-------------------------------------------- | 1 | miR-359 |
| len | cloning frequencies | ||
| AF16 | |||
| -------------------------------------------------------------------------------------TCACTGGTTATCCTCTGTCG-------------------------------- | 20 | 1 | |
| cbr-miR-359 | -------------------------------------------------------------------------------------TCACTGGTTATCCTCTGTCGAA------------------------------ | 22 | - |
| cbriggsae | --------------GACAAAT-----------------CTTCATCCGTCAGAGCATATCTCAGTTACACAACTTCCTAAATAGTGTCACTGGTTATCCTCTGTCGAAATGAAGATGTC------------------- | ||
| cremanei | --------GCAAAAGACTAATGGCC-----TCGATAAACTTCATTGGTCAGAGCAACACGCAGTCACATAAGTTTCTGAAATGTGTCACTGGTTTTCCTCTGACTAATTGAAGATATCGAGTAAATTTTTTTGT--- | ||
| celegans | -----------CAGTACTGATATTAATGCTCCTTGAAATTTCAATCGTTAGAGTAACACACAGTTACACGACCTCATCAATCGTGTCACTGGTCTTTCTCTGACGAATTGAAGTTCTGGAGACAATTTTGGTTGTTG | ||
| cbrenneri | GTATTCTGAAAAAAAACTCAAATCG--------------TTCGATTGTCAGAGCAATCCTCAGTAACACGTACTCATTATTTGTGTCACTGGTTTTCTTCTGACGAATCGAAATGCTCGAGTTCTGGTTTGTTTTGC | ||
| ** * *** ** **** * * **** *** * * * *********** * **** * ** *** * | |||
| +++++ +++++++ ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ +++++ | NM_178660 | ||
| ----- ------- -------------------------------------------------------------------------------- ----- | NM_133381 | ||
| ----- ------- -------------------------------------------------------------------------------- ----- | NM_002254 | ||
| ----- ------- -------------------------------------------------------------------------------- ----- | NM_001059519 | ||
| ----- ------- -------------------------------------------------------------------------------- ----- | NM_024598 | ||
| ----- ------- -------------------------------------------------------------------------------- ----- | NM_175804 | ||
| ----- ------- -------------------------------------------------------------------------------- ----- | NM_001089427 | ||
| ----- ------- -------------------------------------------------------------------------------- ----- | NM_001110788 | ||
| cbriggsae | ((((..( ((((((.((.(((((.(((.(.((((.((((.............)))).))))).))).))))).))..))))))))))) | 1.000 -28.32 | |
| cremanei | ((((((((...((...( ((((((..(((((((((((((((.((.((.((((.(((((...........))))).)))))).)).))))))))))).)))).)))))))...)))))))))) | 0.997 -39.50 | |
| celegans | ....(((((.(((....((((..((.((((((((((((((((.((.((.((((.((((((.........)))))).)))))).)).))))))))).))))))))).))))..))).)))))..... | 0.947 -40.10 | |
| cbrenneri | (((...((((....(((((...... ((((((((((((((.((...(((((.(((((...........))))).)))))..)).))))))).)))))))......)))))....))))...))) | 0.972 -30.40 |
| cbriggsae | chromosome:chrX:7890607:7890693:1 | Same_strand|Intronic_non-coding|NM_178660|Rbms3 ## Opposite_strand|Intronic_non-coding|NM_133381|Crebbp ## Opposite_strand|Intronic_coding|NM_002254|KIF3C ## {Repeats: no} ## {MIR: cbr-mir-359} |
| cremanei | chromosome:chrUn:4288224:4288344:-1 | intergenic |
| celegans | chromosome:chrX:3004270:3004395:1 | intergenic ## {MIR: cel-mir-359} |
| cbrenneri | chromosome:chrUn:1354705:1354827:1 | intergenic |
miRNAknown_cloningHIGH_multiarm_DicerNOK_randfoldOK (6 loci)
cbr-mir-42
| absolute | AF16 |
| cbr-mir-42 5arm | 13 |
| cbr-mir-42 3arm | 311 |
| normalized | AF16 |
| cbr-mir-42 5arm | 0.034 |
| cbr-mir-42 3arm | 0.811 |
sblock14 (miRBase cbr-mir-42) [miRNAknown_cloningHIGH_multiarm_DicerNOK_randfoldOK]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| miRBase cbr-mir-42 | 0.001 | no | no | 0.44/0.59 | 18/26/0.94 | 0.0 0.0 | 0.0 0.0 | 11 291 | 0 0 | 1 1 | 0 0 | 18 15 | 3 2 | 5arm 3arm | 1 1 | nd nd | 0.22 0.05 | 4 1 | 324 | 1 | -1 | 1 |
| Located in cluster 2: cbr-mir-44, cbr-mir-43, cbr-mir-42 |
| Member of family miR-42 (seed ACCGGGU): cbr-mir-42, block5113_cand |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------------------------------CACCGGG-------------------------------------- | 310 | miR-35/36/38/39/40/41 |
| seed | ----------------------------GUGGGUG------------------------------------------------------------------------------------------- | 12 | novel |
| seed | -----------------------------UGGGUGU------------------------------------------------------------------------------------------ | 1 | novel |
| seed | --------------------------------------------------------------------------------UCACCGG--------------------------------------- | 1 | novel |
| seed | ----------------------------------------------------------------------------------ACCGGGU------------------------------------- | 0 | miR-42 |
| len | cloning frequencies | ||
| AF16 | |||
| --------------------------------------------------------------------------------TCACCGGGTTAACATCTACAG------------------------- | 21 | 291 | |
| --------------------------------------------------------------------------------TCACCGGGTTAACATCTAC--------------------------- | 19 | 17 | |
| ---------------------------TGTGGGTGTTCGCCTTTTCGG--TG-------------------------------------------------------------------------- | 23 | 11 | |
| --------------------------------------------------------------------------------TCACCGGGTTAACATCTACA-------------------------- | 20 | 1 | |
| ----------------------------GTGGGTGTTCGCCTTTTCGG--TG-------------------------------------------------------------------------- | 22 | 1 | |
| ---------------------------TGTGGGTGTTCGCCTTTTCGG--TGAAG----------------------------------------------------------------------- | 26 | 1 | |
| -------------------------------------------------------------------------------TTCACCGGGTTAACATCT----------------------------- | 18 | 1 | |
| --------------------------------------------------------------------------------TCACCGGGTTAACATCTA---------------------------- | 18 | 1 | |
| cbr-miR-42 | ---------------------------------------------------------------------------------CACCGGGTTAACATCTACAG------------------------- | 20 | - |
| cbriggsae | ---------TAACCCTTGTCGGACCTTTGTGGGTGTTCGCCTTTTCGG--TGAAGT----------TACTGAATGCTTCTTCACCGGGTTAACATCTACAGAGGTCCTAAAGGGTT---------- | ||
| cremanei | ---------AAACCCTTGTCGGACCTTTGTGGATGTTTCCTTTTTCGG--TGAAGTT---GTTCCGTTGAATTATCTTCTTCACCGGGTTAACATCTACAGAGGTCCTCGAGGGTTT--------- | ||
| celegans | ------------CCCTTCGCGGACCTTTGTGGGTGTTTGCTTTTTCGG--TGAAGTT----GTCTTCCGTAGCTTCTTCTTCACCGGGTTAACATCTACAGAGGTCCAAAAAGGG----------- | ||
| cbrenneri | --------------------------TTGTGGATGTTTGCCTTTTCGG--TGAAGTT---------TCAAAAGATATTCTTCACCGGGTTAACATCTACAG------------------------- | ||
| cjaponica | TCTCGTCTTGAGACGCCGTTGGACCTCCGTGGATGTTTGCTTTTGCGG--TGAAGAG--------GTGATAACGGGCGCTTCACCGGGTTAACATCTACAGAGGTCCGGGCGTCTTCGTGGCGGGA | ||
| ppacificus | ---CATAGTGCATTCAGTGCAGCCCGCAGTGGGTGTCTGCCT---CGGTCTGAAGTGTGAGATGCATGATCCTCCGTTCTTCACCGGGTGAACATCCATTGCGGGCGCATGCACCCTG-------- | ||
| **** *** * * *** ***** *********** ****** * * | |||
| +++++ +++++++++++++++++++++++++++++++++++++++ ++++++ ++++++++++++++++++++++++++++++++++++++++++++++++++ +++++ | NM_001047975 | ||
| +++++ +++++++++++++++++++++++++++++++++++++++ ++++++ ++++++++++++++++++++++++++++++++++++++++++++++++++ +++++ | NM_214509 | ||
| +++++ +++++++++++++++++++++++++++++++++++++++ ++++++ ++++++++++++++++++++++++++++++++++++++++++++++++++ +++++ | NM_001034039 | ||
| +++++ +++++++++++++++++++++++++++++++++++++++ ++++++ ++++++++++++++++++++++++++++++++++++++++++++++++++ +++++ | NM_001033832 | ||
| +++++ +++++++++++++++++++++++++++++++++++++++ ++++++ ++++++++++++++++++++++++++++++++++++++++++++++++++ +++++ | NM_214466 | ||
| +++++ +++++++++++++++++++++++++++++++++++++++ ++++++ ++++++++++++++++++++++++++++++++++++++++++++++++++ +++++ | NM_080679 | ||
| +++++ +++++++++++++++++++++++++++++++++++++++ ++++++ ++++++++++++++++++++++++++++++++++++++++++++++++++ +++++ | NM_080681 | ||
| +++++ +++++++++++++++++++++++++++++++++++++++ ++++++ ++++++++++++++++++++++++++++++++++++++++++++++++++ +++++ | NM_080680 | ||
| ----- --------------------------------------- ------ -------------------------------------------------- ----- | NM_133464 | ||
| cbriggsae | .(((((((...(((((((((((((((((.(((....((( (((((. ............))))))))))).)))))))))))))))))..))))))) | 1.000 -51.82 | |
| cremanei | (((((((((..(((((((((((((((((..((....((( (((((.. ((((....))))......))))))))))..))))))))))))))))).))))))))) | 1.000 -54.20 | |
| celegans | (((((...(((((((((((((((((.(((....((( (((((.. ((........)).....))))))))))).)))))))))))))))))...))))) | 1.000 -46.60 | |
| cbrenneri | .((((((((((.(((....((( (((((.. ((....))....))))))))))).)))))))))). | 1.000 -28.50 | |
| cjaponica | (((((((..((((((((..((((((((.(((((((((.(((....((( (((((.. ((........)).))))))))))).))))))))).))))))))))))))))...))))))) | 1.000 -64.70 | |
| ppacificus | ....(((((.....(((.(((((((((((((((..(((. ((((..((((...(((..........)))....)))))))))))..))))))))))))))))))))))).... | 0.999 -54.40 |
| cbriggsae | chromosome:chrII:8049572:8049666:-1 | Same_strand|Intronic_coding|NM_001047975|LOC683871 ## Opposite_strand|Intronic_non-coding|NM_133464|ZNF483 ## {Repeats: no} ## {MIR: cbr-mir-42} |
| cremanei | chromosome:chrUn:8362075:8362177:1 | intergenic |
| celegans | chromosome:chrII:11889724:11889820:1 | intergenic ## {MIR: cel-mir-42} |
| cbrenneri | chromosome:chrUn:172696155:172696289:1 | intergenic |
| cjaponica | chromosome:chrUn:98919245:98919360:-1 | intergenic |
| ppacificus | chromosome:chrUn:21366661:21366772:-1 | Opposite_strand|Intronic_coding|NM_001032504 ## Same_strand|Intronic_coding|NM_066966 ## {Repeats: G-rich 6 78 -1 class=Low_complexity} |
cbr-mir-77
| absolute | AF16 |
| cbr-mir-77 5arm | 1 |
| cbr-mir-77 3arm | 4593 |
| normalized | AF16 |
| cbr-mir-77 5arm | 0.003 |
| cbr-mir-77 3arm | 11.973 |
sblock17 (miRBase cbr-mir-77-1) [miRNAknown_cloningHIGH_multiarm_DicerNOK_randfoldOK]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| miRBase cbr-mir-77-1 | 0.001 | no | no | 0.42/0.55 | 19/26/0.99 | 0.0 0.0 | 0.0 0.0 | 1 4494 | 0 0 | 1 1 | 0 0 | 16 15 | 1 6 | 5arm 3arm | 2 2 | nd nd | 0.17 0.14 | 2 2 | 4594 | 1 | 5 | 3 |
| Member of family miR-77 (seed UCAUCAG): cbr-mir-77, cbr-mir-77 |
| reads | miRBase family seed | ||
| seed | ----------------------------------------------------------------------UCAUCAG----------------------------------------- | 4568 | miR-77 |
| seed | ------------------------------------------------------------------CAUUUCA--------------------------------------------- | 10 | novel |
| seed | -----------------------------------------------------------------------CAUCAGG---------------------------------------- | 6 | novel |
| seed | --------------------------------------------------------------------UUUCAUC------------------------------------------- | 6 | novel |
| seed | ---------------------------------------------------------------------UUCAUCA------------------------------------------ | 2 | novel |
| seed | --------------------------AGCUGUG------------------------------------------------------------------------------------- | 1 | novel |
| seed | --------------------------------------------------------------------------CAGGCCA------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| ---------------------------------------------------------------------TTCATCAGGCCATAGCTGTCC---------------------------- | 21 | 4494 | |
| ---------------------------------------------------------------------TTCATCAGGCCATAGCTGT------------------------------ | 19 | 29 | |
| ---------------------------------------------------------------------TTCATCAGGCCATAGCTGTCCAAAT------------------------ | 25 | 24 | |
| ---------------------------------------------------------------------TTCATCAGGCCATAGCTGTC----------------------------- | 20 | 11 | |
| ---------------------------------------------------------------------TTCATCAGGCCATAGCTGTCCAA-------------------------- | 23 | 8 | |
| -----------------------------------------------------------------TCATTTCATCAGGCCATAGCTGT------------------------------ | 23 | 7 | |
| -------------------------------------------------------------------ATTTCATCAGGCCATAGCTGT------------------------------ | 21 | 5 | |
| ----------------------------------------------------------------------TCATCAGGCCATAGCTGTCC---------------------------- | 20 | 4 | |
| -----------------------------------------------------------------TCATTTCATCAGGCCATAGCTG------------------------------- | 22 | 3 | |
| --------------------------------------------------------------------TTTCATCAGGCCATAGCTGTCC---------------------------- | 22 | 2 | |
| ----------------------------------------------------------------------TCATCAGGCCATAGCTGTCCA--------------------------- | 21 | 2 | |
| ---------------------------------------------------------------------TTCATCAGGCCATAGCTGTCCAAATT----------------------- | 26 | 2 | |
| -------------------------------------------------------------------------TCAGGCCATAGCTGTCCAAA------------------------- | 20 | 1 | |
| -------------------------------------------------------------------ATTTCATCAGGCCATAGCT-------------------------------- | 19 | 1 | |
| -------------------------TAGCTGTGCTCTGAGGAAATAAC---------------------------------------------------------------------- | 23 | 1 | |
| cbr-miR-77 | ---------------------------------------------------------------------TTCATCAGGCCATAGCTGTCCA--------------------------- | 22 | - |
| cbriggsae | ---------GAGCTGTGAATTTGGATAGCTGTGCTCTGAGGAAATAACAATAGTCACACCCCATGTCATTTCATCAGGCCATAGCTGTCCAAATTTCTCG-GTTCG------------ | ||
| cremanei | AACTGTAAAGAGCTGTTAGTTTGGATGGCTGTGCTCTGAGGAAATACGGCT-----CATAAAATGTCATTTCATCAGGCCATAGCTGTCCAAATTATCAATGTTCGAAAGTT------ | ||
| celegans | ----------------------GGATGGTTGTGCTCTGAGGAAATACG--------CACAGAATGTCATTTCATCAGGCCATAGCTGTCC---------------------------- | ||
| cbrenneri | ---------GAGCCAATAATTTGGATGGCTGTGCCTTGAAGAAATA----------CAGTTAGTGTCATTTCATCAGGCCATAGCTGTCCAAATTGTTAG-GTTCGCCAGTTTTTTAG | ||
| cjaponica | -------GCGCATTTTCAGTTTGGATGACTGTGCTCTGAAGAAATACTGATG---ATCGTCCGTAGCATTTCATCAGGCCATAGTTGTCCAAACTGAGAG-TTGTG-TGTTTTTTCAC | ||
| **** ***** *** ****** * ****************** ***** | |||
| ----- ------------------------------------------------------------------------------------------- ----- ----- | NM_077872 | ||
| cbriggsae | ((((((.(((((((((((((((((..((((.(((((.(((..............))).))))).))))..)))))))))))))))))..)) )))). | 1.000 -43.34 | |
| cremanei | ((((.....((((((.(((((((((((((((((..((((.(((((..(((. ........)))))))).))))..))))))))))))))))).))..))))...)))) | 1.000 -39.90 | |
| celegans | (((((((((((..((((.(((((..( ((.....))).))))).))))..))))))))))) | 1.000 -23.20 | |
| cbrenneri | ((((((((((((((((((((((((.(((((.(((((( ((.....))).))))).))))).))))))))))))))))))).) ))))............. | 0.995 -44.30 | |
| cjaponica | ((((((((((((((((((..((((((..((((.(((((.((.((( ......))))).))))).))))..))))))..))))))))))))) ).))) ).......... | 0.993 -47.20 |
| cbriggsae | chromosome:chrII:12520818:12520913:-1 | Opposite_strand|Intronic_coding|NM_077872|collagen ## {Repeats: no} ## {MIR: cbr-mir-77-1} |
| cremanei | chromosome:chrUn:53585347:53585453:-1 | intergenic |
| celegans | chromosome:chrII:12519164:12519299:1 | intergenic ## {MIR: cel-mir-77} |
| cbrenneri | chromosome:chrUn:11565280:11565377:-1 | Opposite_strand|Intronic_coding|NM_031741 |
| cjaponica | chromosome:chrUn:40079835:40079940:1 | Opposite_strand|Intronic_coding|NM_001101877 |
sblock18 (miRBase cbr-mir-77-2) [miRNAknown_cloningHIGH_multiarm_DicerNOK_randfoldOK]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| miRBase cbr-mir-77-2 | 0.001 | no | no | 0.42/0.55 | 19/26/0.99 | 0.0 0.0 | 0.0 0.0 | 1 4494 | 0 0 | 1 1 | 0 0 | 16 15 | 1 6 | 5arm 3arm | 2 2 | nd nd | 0.17 0.14 | 2 2 | 4594 | 1 | 5 | 3 |
| Member of family miR-77 (seed UCAUCAG): cbr-mir-77, cbr-mir-77 |
| reads | miRBase family seed | ||
| seed | ----------------------------------------------------------------------UCAUCAG----------------------------------------- | 4568 | miR-77 |
| seed | ------------------------------------------------------------------CAUUUCA--------------------------------------------- | 10 | novel |
| seed | -----------------------------------------------------------------------CAUCAGG---------------------------------------- | 6 | novel |
| seed | --------------------------------------------------------------------UUUCAUC------------------------------------------- | 6 | novel |
| seed | ---------------------------------------------------------------------UUCAUCA------------------------------------------ | 2 | novel |
| seed | --------------------------AGCUGUG------------------------------------------------------------------------------------- | 1 | novel |
| seed | --------------------------------------------------------------------------CAGGCCA------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| ---------------------------------------------------------------------TTCATCAGGCCATAGCTGTCC---------------------------- | 21 | 4494 | |
| ---------------------------------------------------------------------TTCATCAGGCCATAGCTGT------------------------------ | 19 | 29 | |
| ---------------------------------------------------------------------TTCATCAGGCCATAGCTGTCCAAAT------------------------ | 25 | 24 | |
| ---------------------------------------------------------------------TTCATCAGGCCATAGCTGTC----------------------------- | 20 | 11 | |
| ---------------------------------------------------------------------TTCATCAGGCCATAGCTGTCCAA-------------------------- | 23 | 8 | |
| -----------------------------------------------------------------TCATTTCATCAGGCCATAGCTGT------------------------------ | 23 | 7 | |
| -------------------------------------------------------------------ATTTCATCAGGCCATAGCTGT------------------------------ | 21 | 5 | |
| ----------------------------------------------------------------------TCATCAGGCCATAGCTGTCC---------------------------- | 20 | 4 | |
| -----------------------------------------------------------------TCATTTCATCAGGCCATAGCTG------------------------------- | 22 | 3 | |
| --------------------------------------------------------------------TTTCATCAGGCCATAGCTGTCC---------------------------- | 22 | 2 | |
| ----------------------------------------------------------------------TCATCAGGCCATAGCTGTCCA--------------------------- | 21 | 2 | |
| ---------------------------------------------------------------------TTCATCAGGCCATAGCTGTCCAAATT----------------------- | 26 | 2 | |
| -------------------------------------------------------------------------TCAGGCCATAGCTGTCCAAA------------------------- | 20 | 1 | |
| -------------------------------------------------------------------ATTTCATCAGGCCATAGCT-------------------------------- | 19 | 1 | |
| -------------------------TAGCTGTGCTCTGAGGAAATAAC---------------------------------------------------------------------- | 23 | 1 | |
| cbr-miR-77 | ---------------------------------------------------------------------TTCATCAGGCCATAGCTGTCCA--------------------------- | 22 | - |
| cbriggsae | ---------GAGCTGTGAATTTGGATAGCTGTGCTCTGAGGAAATAACAATAGTCACACCCCATGTCATTTCATCAGGCCATAGCTGTCCAAATTTCTCG-GTTCG------------ | ||
| cremanei | AACTGTAAAGAGCTGTTAGTTTGGATGGCTGTGCTCTGAGGAAATACGGCT-----CATAAAATGTCATTTCATCAGGCCATAGCTGTCCAAATTATCAATGTTCGAAAGTT------ | ||
| celegans | ----------------------GGATGGTTGTGCTCTGAGGAAATACG--------CACAGAATGTCATTTCATCAGGCCATAGCTGTCC---------------------------- | ||
| cbrenneri | ---------GAGCCAATAATTTGGATGGCTGTGCCTTGAAGAAATA----------CAGTTAGTGTCATTTCATCAGGCCATAGCTGTCCAAATTGTTAG-GTTCGCCAGTTTTTTAG | ||
| cjaponica | -------GCGCATTTTCAGTTTGGATGACTGTGCTCTGAAGAAATACTGATG---ATCGTCCGTAGCATTTCATCAGGCCATAGTTGTCCAAACTGAGAG-TTGTG-TGTTTTTTCAC | ||
| **** ***** *** ****** * ****************** ***** | |||
| ----- ------------------------------------------------------------------------------------------- ----- ----- | NM_077872 | ||
| cbriggsae | ((((((.(((((((((((((((((..((((.(((((.(((..............))).))))).))))..)))))))))))))))))..)) )))). | 1.000 -43.34 | |
| cremanei | ((((.....((((((.(((((((((((((((((..((((.(((((..(((. ........)))))))).))))..))))))))))))))))).))..))))...)))) | 1.000 -39.90 | |
| celegans | (((((((((((..((((.(((((..( ((.....))).))))).))))..))))))))))) | 1.000 -23.20 | |
| cbrenneri | ((((((((((((((((((((((((.(((((.(((((( ((.....))).))))).))))).))))))))))))))))))).) ))))............. | 0.995 -44.30 | |
| cjaponica | ((((((((((((((((((..((((((..((((.(((((.((.((( ......))))).))))).))))..))))))..))))))))))))) ).))) ).......... | 0.993 -47.20 |
| cbriggsae | chromosome:chrII:12523535:12523630:-1 | Opposite_strand|Intronic_coding|NM_077872|collagen ## {Repeats: no} ## {MIR: cbr-mir-77-2} |
| cremanei | chromosome:chrUn:53585347:53585453:-1 | intergenic |
| celegans | chromosome:chrII:12519164:12519299:1 | intergenic ## {MIR: cel-mir-77} |
| cbrenneri | chromosome:chrUn:11565280:11565377:-1 | Opposite_strand|Intronic_coding|NM_031741 |
| cjaponica | chromosome:chrUn:40079835:40079940:1 | Opposite_strand|Intronic_coding|NM_001101877 |
cbr-mir-38
| absolute | AF16 |
| cbr-mir-38 5arm | 4 |
| cbr-mir-38 3arm | 87 |
| normalized | AF16 |
| cbr-mir-38 5arm | 0.010 |
| cbr-mir-38 3arm | 0.227 |
sblock21 (miRBase cbr-mir-38) [miRNAknown_cloningHIGH_multiarm_DicerNOK_randfoldOK]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| miRBase cbr-mir-38 | 0.001 | no | no | 0.50/0.60 | 19/22/0.99 | 0.0 0.0 | 0.0 0.0 | 4 77 | 0 0 | 1 1 | 0 0 | 23 24 | 4 16 | 5arm 3arm | 1 1 | nd nd | 0.09 0.18 | 2 2 | 91 | 1 | 4 | 2 |
| Located in cluster 3: cbr-mir-36, cbr-mir-38, cbr-mir-39, cbr-mir-40, block969_novel, cel-mir-35, cbr-mir-41, cbr-mir-35 |
| Member of family miR-35/36/38/39/40/41 (seed CACCGGG): cel-mir-35, cel-mir-35, cel-mir-36, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cbr-mir-39, cbr-mir-35, cbr-mir-36, cbr-mir-40, cbr-mir-41, cbr-mir-38, block969_novel, block5129_cand |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------------------------CACCGGG--------------------------------------------- | 86 | miR-35/36/38/39/40/41 |
| seed | ------------------------CCGGGUU-------------------------------------------------------------------------------------------- | 4 | novel |
| seed | ---------------------------------------------------------------------------GGGAGAC----------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| cbr-miR-38 | ----------------------------------------------------------------------TCACCGGGAGACAACCTGGTAT------------------------------- | 22 | 77 |
| ----------------------------------------------------------------------TCACCGGGAGACAACCTGGT--------------------------------- | 20 | 8 | |
| -----------------------ACCGGGTTCTCTTTGTG-GTGAT----------------------------------------------------------------------------- | 22 | 4 | |
| --------------------------------------------------------------------------CGGGAGACAACCTGGTATA------------------------------ | 19 | 1 | |
| ----------------------------------------------------------------------TCACCGGGAGACAACCTGGTA-------------------------------- | 21 | 1 | |
| cbriggsae | ATTCATGTGGAGCCTGGACCTGTACCGGGTTCTCTTTGTG-GTGATATGACAACTCATAACCATTCCTTATCACCGGGAGACAACCTGGTATAGGTC-------CAGCGACTCTGCTGGATGG | ||
| celegans | GTTCC----------------------GGTTTTTTCCGTG-GTGATAACGCATCCAAAAG----TCTCTATCACCGGGAGAAAAACTGGAGT------------------------------- | ||
| cbrenneri | TTGCGTAGGGGAACCAAGCT-------AGTTCTTACCGCG-GTGCTACAACAAGCATAAC-----ATCTAACACCGGGTAAAAAC-TAGCTCGGGTCCCCCTTGCAACATTTTCCCTTCCCC- | ||
| ppacificus | GTACCGTACCCACCCCGTCCTGCATCGCGTATCGCCCGTGTGTGCTCGCATAAGAAGTAC----------TCACCGGGAGAAATG-CGATGTAGGCC-------CGTGGCCTACCGTAC---- | ||
| * * ** * * *** * * * ******* * * | |||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_177732 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_214509 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_001030843 | ||
| +++++++++++++++++++++++++++++++++++++++++++++ ++++++++++++++++++++++++++++++++++++++++++++++++++++++++ ++++++++++++++++++++++++ | NM_001101718 | ||
| +++++++++++++++++++++++++++++++++++++++++++++ ++++++++++++++++++++++++++++++++++++++++++++++++++++++++ ++++++++++++++++++++++++ | NM_001011629 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_207243 | ||
| --------------------------------------------- -------------------------------------------------------- ------------------------ | NM_171042 | ||
| cbriggsae | (((((.(..((((((((((((((((((((((((((..((( (((((((((....)))))........)))))))..)))))..)))))))))))))) ))).).)))..)))))).. | 1.000 -58.40 | |
| celegans | .(((( ((((((((((.(( ((((((..((........) )...)))))))))))))))).)))))). | 1.000 -25.60 | |
| cbrenneri | (((((..(((((.((.(((( ((((.(((((.(( (((................ ......)))))))))).))) ))))).)).)))))..)))))............... | 0.969 -43.75 | |
| ppacificus | ((((.(((.((((.....((((((((((((.((.((((((.((((((......)).)))) .))).))).)).))) ))))))))).. .))))..))).)))) | 1.000 -46.70 |
| cbriggsae | chromosome:chrII:7535859:7535973:1 | Opposite_strand|Intronic_non-coding|NM_177732|Slc35d1 ## Opposite_strand|Intronic_coding|NM_214509|COLP1alpha ## Same_strand|Intronic_coding|NM_001101718|LOC100009540 ## Same_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## {Repeats: no} ## {MIR: cbr-mir-38} |
| celegans | chromosome:chrII:11537817:11537971:1 | Opposite_strand|Intronic_coding|Y62F5A.9 ## {MIR: cel-mir-38} |
| cbrenneri | chromosome:chrUn:170984328:170984435:-1 | Opposite_strand|Intronic_coding|NM_171042 |
| ppacificus | chromosome:chrUn:118860534:118860634:1 | Same_strand|Intronic_coding|NM_133957 ## {Repeats: (CCCTA)n 5 80 1 class=Simple_repeat} |
cbr-mir-80
| absolute | AF16 |
| cbr-mir-80 5arm | 3 |
| cbr-mir-80 3arm | 1983 |
| normalized | AF16 |
| cbr-mir-80 5arm | 0.008 |
| cbr-mir-80 3arm | 5.169 |
sblock34 (miRBase cbr-mir-80) [miRNAknown_cloningHIGH_multiarm_DicerNOK_randfoldOK]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| miRBase cbr-mir-80 | 0.001 | no | no | 0.28/0.45 | 18/25/0.99 | 0.0 0.0 0.0 | 0.0 0.0 0.0 | 2 1 1942 | 0 0 0 | 1 1 1 | 0 0 0 | 17 39 18 | 11 -13 10 | 5arm 5arm_loop_3arm 3arm | 1 1 1 | nd nd nd | 0.11 0.35 0.18 | 1 4 2 | 1986 | 1 | -2 | 1 |
| Member of family miR-80/81/82 (seed GAGAUCA): cel-mir-82, cbr-mir-81, cbr-mir-80, cbr-mir-82 |
| reads | miRBase family seed | ||
| seed | ----------------------------------------------------------------------------------GAGAUCA----------------------------------------------------- | 1967 | miR-80/81/82 |
| seed | ---------------------------------------------------------------------------------UGAGAUC------------------------------------------------------ | 9 | novel |
| seed | -----------------------------------------------------------------------------------AGAUCAU---------------------------------------------------- | 7 | novel |
| seed | --------------------------------------GCUUUCG------------------------------------------------------------------------------------------------- | 2 | novel |
| seed | -------------------------------------------------------------AUACGCU-------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| ---------------------------------------------------------------------------------TGAGATCATTAGTTGAAAGCCG--------------------------------------- | 22 | 1942 | |
| ---------------------------------------------------------------------------------TGAGATCATTAGTTGAAAGCC---------------------------------------- | 21 | 10 | |
| --------------------------------------------------------------------------------TTGAGATCATTAGTTGAAAGCCG--------------------------------------- | 23 | 9 | |
| ---------------------------------------------------------------------------------TGAGATCATTAGTTGAAAG------------------------------------------ | 19 | 8 | |
| ----------------------------------------------------------------------------------GAGATCATTAGTTGAAAGCCGA-------------------------------------- | 22 | 5 | |
| ---------------------------------------------------------------------------------TGAGATCATTAGTTGAAAGCCGAAC------------------------------------ | 25 | 4 | |
| ---------------------------------------------------------------------------------TGAGATCATTAGTTGAAAGCCGAA------------------------------------- | 24 | 2 | |
| ----------------------------------------------------------------------------------GAGATCATTAGTTGAAAGCCG--------------------------------------- | 21 | 2 | |
| -------------------------------------AGCTTTCGACAT-GATTCT-------------------------------------------------------------------------------------- | 18 | 2 | |
| ------------------------------------------------------------AATACGCTGTCGCAATGTTG-------------------------------------------------------------- | 20 | 1 | |
| ---------------------------------------------------------------------------------TGAGATCATTAGTTGAAA------------------------------------------- | 18 | 1 | |
| cbr-miR-80 | ---------------------------------------------------------------------------------TGAGATCATTAGTTGAAAGCCGA-------------------------------------- | 23 | - |
| cbriggsae | --------------------TGGACACTCTTTCGCTCAGCTTTCGACAT-GATTCTAAACAATACGCTGTCGCAATGTTGTTGAGATCATTAGTTGAAAGCCGAACGA-TTCGAGATATCCA-------------------- | ||
| cremanei | ---------------------GGACACTCTTTCGCTCAGCTTTCGACAT-GATTCTAAACAATACGTCGAGACAATGTTGTTGAGATCATTAGTTGAAAGCCGAACGATTTTGAGATATCC--------------------- | ||
| celegans | GGTGCTTATTCCTTTTTCAATGGACACTCGTTCGCTCAGCTTTCGACAT-GATTCTGAACAATCCGCAA-GCCCATGTTGTTGAGATCATTAGTTGAAAGCCGAATGA-TCAGAGATATCCACATTCACAACCTGAAGTATT | ||
| cbrenneri | ------------------------------------CAGCTTTCGACAT-GGTTCTGAACAATACGCATTGCATATGTTGTTGAGATCATTAGTTGAAAGCCG--------------------------------------- | ||
| cjaponica | ---------------------GGTTTCTCTGTCGCTCAGCTTTCGACAT-GATTCTGAACAATTCCACACATTTATGTTGTTGAGATCATTAGTTGAAAGCCGAATGA-TTCGAGCGAACC--------------------- | ||
| ppacificus | ---------------------CGATAATCG-----TCATTTGAAGGCATGGAAGCTGATCAA--------AATTTTTATGCCGAGATCA-AAGATGAAATCAG--------------------------------------- | ||
| ** * * *** * ** * *** * ** ******* ** ***** * * | |||
| ----- ----------------------------- ---------------------------------------------------------- ------------- ----- | NM_001026518 | ||
| ----- ----------------------------- ---------------------------------------------------------- ------------- ----- | NM_001090393 | ||
| ----- ----------------------------- ---------------------------------------------------------- ------------- ----- | NM_001730 | ||
| +++++ +++++++++++++++++++++++++++++ ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ +++++++++++++ +++++ | NM_070558 | ||
| cbriggsae | .(((..(((..(((.((.((((((((((( (((.((.(((((((.((....))..))))))).)))))))..))))))))).)).))) ...)))...))). | 1.000 -33.90 | |
| cremanei | (((..(((..(((.((.((((((((((( ((.(((.(((((((.((....))..))))))).)))))))..))))))))).)).)))....)))...))) | 1.000 -30.80 | |
| celegans | .((((((.............((((..(((..(((.((.((((((((((( ((.(((.((((((...... ......)))))).)))))))..))))))))).)).))) ...)))...)))).............)))))). | 0.835 -36.17 | |
| cbrenneri | ..((((((((((( ((.(((.(((((((.((...))...))))))).)))))))..))))))))).. | 1.000 -22.30 | |
| cjaponica | ((((((((.((((.((.((((((((((( ((.(((.((((((.............)))))).)))))))..))))))))).)).))) )..))).))))) | 0.999 -33.52 | |
| ppacificus | .(((..((( ((.(((((.((((((((((........ ..))))))))))....))) ))))))).))).. | 1.000 -18.70 |
| cbriggsae | chromosome:chrIII:13406582:13406681:-1 | Opposite_strand|Intronic_coding|NM_001026518|Y105E8A.29 ## Opposite_strand|Intronic_non-coding|NM_001090393|Egr1 ## Same_strand|Intronic_non-coding|NM_070558|rho-1 ## {Repeats: no} ## {MIR: cbr-mir-80} |
| cremanei | chromosome:chrUn:98380888:98380986:-1 | intergenic |
| celegans | chromosome:chrIII:8865155:8865293:-1 | intergenic ## {MIR: cel-mir-80} |
| cbrenneri | chromosome:chrUn:17761140:17761279:-1 | Same_strand|Intronic_coding|NM_209159 |
| cjaponica | chromosome:chrUn:4628117:4628214:1 | Same_strand|Intronic_coding|NM_080787 ## Opposite_strand|Intronic_coding|NM_078517 |
| ppacificus | chromosome:chrUn:166478392:166478531:1 | Opposite_strand|Intronic_coding|NM_001071427 |
cbr-mir-73
| absolute | AF16 |
| cbr-mir-73 5arm | 1 |
| cbr-mir-73 3arm | 128 |
| normalized | AF16 |
| cbr-mir-73 5arm | 0.003 |
| cbr-mir-73 3arm | 0.334 |
sblock70 (miRBase cbr-mir-73) [miRNAknown_cloningHIGH_multiarm_DicerNOK_randfoldOK]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| miRBase cbr-mir-73 | 0.002 | no | no | 0.42/0.64 | 19/25/0.97 | 0.0 0.0 | 0.0 0.0 | 1 119 | 0 0 | 1 1 | 0 0 | 16 16 | -1 2 | 5arm_loop 3arm | 1 1 | nd nd | 0.32 0.26 | 2 2 | 129 | 1 | 5 | 2 |
| Located in cluster 9: cbr-mir-74, sblock69_novel, cbr-mir-73 |
| Member of family miR-73/74 (seed GGCAAGA): cel-mir-73, cbr-mir-74, cbr-mir-73, sblock19_novel, sblock69_novel |
| reads | miRBase family seed | ||
| seed | ------------------------------------------------------------------------------GGCAAGA----------------------------------------------- | 126 | miR-73/74 |
| seed | ----------------------------------------------------------------------------------AGAUGUU------------------------------------------- | 2 | novel |
| seed | ------------------------------GAGCUUC----------------------------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| cbr-miR-73 | -----------------------------------------------------------------------------TGGCAAGATGTTGGCAGTTCAGT-------------------------------- | 23 | 119 |
| -----------------------------------------------------------------------------TGGCAAGATGTTGGCAGTTCAGTT------------------------------- | 24 | 4 | |
| ---------------------------------------------------------------------------------AAGATGTTGGCAGTTCAGT-------------------------------- | 19 | 2 | |
| -----------------------------------------------------------------------------TGGCAAGATGTTGGCAGTTC----------------------------------- | 20 | 1 | |
| -----------------------------------------------------------------------------TGGCAAGATGTTGGCAGTTCAG--------------------------------- | 22 | 1 | |
| -----------------------------------------------------------------------------TGGCAAGATGTTGGCAGTT------------------------------------ | 19 | 1 | |
| -----------------------------CGAGCTTCCCCGTCAAGCCACAGCT------------------------------------------------------------------------------ | 25 | 1 | |
| cbriggsae | -------------CGGTCCCTCAAACAACCGAGCTTCCCCGTCAAGCCACAGCT------ATC---TCTGACATTGCTGGCAAGATGTTGGCAGTTCAGTTGTATG---ACGGAGACCA------------- | ||
| cremanei | ------CAGCGAGAGGTCCCTCAAACGACTGAGCTTCCACGTCAAGCCTCAGCT------ATCGAATGAAAAATTGCTGGCAAGATGTAGGCAGTTCAGTTGTATG----CGGAGACCAATTTCCTG----- | ||
| celegans | TTATTCCAGTGAG-AGTCCCACACACGACTGGACTTCCATATCGAGCCACAGCT------ATC---AACGAATTTGCTGGCAAGATGTAGGCAGTTCAGTTGTGCGTTTATGGAGACCAACATCCGGATTAA | ||
| cbrenneri | --------------GGTCCTTAATACGACTGAGCTTCCACATCAGACCACAGCT------ATTCACAAAAAAAATGCTGGCAAGATGTAGGCAGTTCAGTTGTATG----CGGTGACC-------------- | ||
| cjaponica | ------GTGTGAGCGGTCCATCGAGCGACCGAACTTCCATATCGAGCC-CAGCCCACTCGACC---AAATAAGACGCTGGCAAGATGTTGGCAGTTCAGTCGCAAG---ATTGTGACCAATACTTGCTCCAC | ||
| **** * ** * ***** ** ** **** * * ************* *********** * * * **** | |||
| ----- ----------------------------------------- --- ---------------------------------------- ---------- ----- | NM_001087279 | ||
| ----- ----------------------------------------- --- ---------------------------------------- ---------- ----- | NM_072843 | ||
| +++++ +++++++++++++++++++++++++++++++++++++++++ +++ ++++++++++++++++++++++++++++++++++++++++ ++++++++++ +++++ | NM_001109816 | ||
| ----- ----------------------------------------- --- ---------------------------------------- ---------- ----- | NM_065440 | ||
| +++++ +++++++++++++++++++++++++++++++++++++++++ +++ ++++++++++++++++++++++++++++++++++++++++ ++++++++++ +++++ | NM_020367 | ||
| cbriggsae | .(((((((((.(((((.(((((.((.((((..((((..((. ... .........))))))..))))..)).))))).))))).)) ).)).)))). | 1.000 -36.42 | |
| cremanei | (((.((((((((((.((.(((((((((((.(((((((..(((..(((. ...............))))))..))))).)).))))))))))).)) .)).))))..))))))) | 0.999 -45.19 | |
| celegans | .((.(((.(((.. .(((((((.((((((((((((.(((((((..(((..(((. ... .........))))))..))))).)).)))))))))))).))....)).)))...)))..))).)). | 0.990 -41.92 | |
| cbrenneri | ((((((..(((((((((((((.(((((((......((((. ...............))))....))))).)).))))))))))))). .)).)))) | 1.000 -36.59 | |
| cjaponica | (((.((((((((((((..(((((.(((((.(((((((..((. ((((....((.... ......)).))))))..))))).)).))))).)))))..) ).)).)))).......))))))) | 0.997 -44.31 |
| cbriggsae | chromosome:chrX:4493863:4493956:-1 | Opposite_strand|Intronic_non-coding|NM_001087279|fbxl5 ## Same_strand|Intronic_coding|NM_001109816|MHC ## Same_strand|Intronic_non-coding|NM_020367|PARP11 ## {Repeats: no} ## {MIR: cbr-mir-73} |
| cremanei | chromosome:chrUn:103837693:103837803:-1 | intergenic |
| celegans | chromosome:chrX:2368753:2368874:1 | intergenic ## {MIR: cel-mir-73} |
| cbrenneri | chromosome:chrUn:1030699:1030792:-1 | intergenic |
| cjaponica | chromosome:chrUn:6831545:6831663:1 | intergenic |
miRNAknown_cloningOK_multiarm_DicerNOK_randfoldOK (2 loci)
cbr-mir-241
| absolute | AF16 |
| cbr-mir-241 5arm | 6 |
| cbr-mir-241 3arm | 2 |
| normalized | AF16 |
| cbr-mir-241 5arm | 0.016 |
| cbr-mir-241 3arm | 0.005 |
sblock63 (miRBase cbr-mir-241) [miRNAknown_cloningOK_multiarm_DicerNOK_randfoldOK]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| miRBase cbr-mir-241 | 0.001 | no | no | 0.43/0.53 | 19/21/0.78 | 0.0 0.0 | 0.0 0.0 | 6 2 | 0 0 | 1 1 | 0 0 | 13 16 | 4 7 | 5arm 3arm | 1 1 | nd nd | 0.05 0.11 | 1 1 | 8 | 1 | 1 | -1 |
| Member of family miR-241/48/let-7/84 (seed GAGGUAG): cbr-let-7, cbr-mir-48, cbr-mir-241, cbr-mir-84 |
| reads | miRBase family seed | ||
| seed | ----------------------------------GAGGUAG----------------------------------------------------------------------------------------------- | 6 | miR-241/48/let-7/84 |
| seed | ----------------------------------------------------------------------------------UUGUCUC----------------------------------------------- | 2 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| ---------------------------------TGAGGTAGGTGTGAGAAATG----------------------------------------------------------------------------------- | 20 | 6 | |
| -----------------------------------------------------------------------------A----TTGTCTCGCAGCTGCTTC------------------------------------ | 19 | 2 | |
| cbr-miR-241 | ---------------------------------TGAGGTAGGTGTGAGAAATGA---------------------------------------------------------------------------------- | 21 | - |
| cbriggsae | --------------------ACGGTGTCAAAGCTGAGGTAGGTGTGAGAAATGACGAAAGGCTCTTAATCGT--TTCA----TTGTCTCGCAGCTGCTTCAACTGTGA-------TTTACCGA------------- | ||
| cremanei | ---------------------------------AGAGGTAGGTGCGAGAAATGACGGAACCTCACAAATCATCGTTCA----TTGTCTCGCAGCTGCTTCA----------------------------------- | ||
| celegans | -----------------GCGGGGGTGTCAAAGTTGAGGTAGGTGCGAGAAATGACGGCATCCATATAGTAATCGTTCA----TTGTCTCTCAGCTGCTTCATCTGTGA-----------------CATGGCTACGC | ||
| cbrenneri | ---------GCAAAAAACAAGGGGTGTCAAAGTAGAGGTAGGTGCGAGAAATGACGGGCATCGTGCAA--ATCGTTCA----TTGTCTCCCAGCTACTTCAACTGTGATTTCAACCCTTTGAATTGACTTTTTTGT | ||
| cjaponica | -----GTGTACGTTGCCGCTGGGGTGTCAAAGTTGAGGTAGGTGCGAGAAATGACGAGAATCATCCAAATCGCGCTCA----TTGCCTCCAATCTGCCTCGACTGGGACG-----CTCGTCGCGCATTTTGTGCAT | ||
| ppacificus | GCGTATTGATTGTCTGGGAGAGAGAGGAAGGGAAGAGGTAGGGCGGAGGAGAGCAGGTAGATCACTAGCCTCCTCCCGGCCTCTTCCTCCCTCCTCCCTCCACTCAGT--------TCGTCAAAGGTCAGCTACGC | ||
| ******** *** * * * * * * *** ** * ** | |||
| ----- ---------------------------------------------------- ---- -------------------------- -------- ----- | NM_074155 | ||
| ----- ---------------------------------------------------- ---- -------------------------- -------- ----- | NM_001028773 | ||
| ----- ---------------------------------------------------- ---- -------------------------- -------- ----- | NM_001027854 | ||
| ----- ---------------------------------------------------- ---- -------------------------- -------- ----- | NM_074150 | ||
| +++++ ++++++++++++++++++++++++++++++++++++++++++++++++++++ ++++ ++++++++++++++++++++++++++ ++++++++ +++++ | NM_001113262 | ||
| ----- ---------------------------------------------------- ---- -------------------------- -------- ----- | NM_136816 | ||
| +++++ ++++++++++++++++++++++++++++++++++++++++++++++++++++ ++++ ++++++++++++++++++++++++++ ++++++++ +++++ | NM_001113262 | ||
| +++++ ++++++++++++++++++++++++++++++++++++++++++++++++++++ ++++ ++++++++++++++++++++++++++ ++++++++ +++++ | NM_001113262 | ||
| cbriggsae | .((((((((.((.((((((((.(((((((((((((((...........))). .))) )).))))))).)))))))).)).))) )..)))). | 1.000 -36.40 | |
| cremanei | .(((((((.(((((((((((((((..............)))).)) )).))))))).))))))). | 1.000 -27.24 | |
| celegans | (((.((((((((.((.((((((((.((.((((((((((((..............)))).)) )).)))).)).)))))))).)).))) )))..)).))) | 1.000 -35.04 | |
| cbrenneri | ((((((((((((((((((((.(((.(((((((.((.(((((((((((.((.....)).. ..))).)) )).)))).)).))))))).))).))))....)))))))).......)))))))) | 0.995 -42.81 | |
| cjaponica | (((((((.((.(((..(((((((..((((((((((((((.(((.(((((((.((..........)).)).))) ))..))))).))))))))))))..)))) )))...)))))...))))))) | 0.986 -52.50 | |
| ppacificus | (((((((((((..(((((.(((.((((.(((((.((((.(((.((((((((.((.(((.....))).)))))))).)).))))))).))))))))).)))..))))). ........)))))).))))) | 0.972 -61.90 |
| cbriggsae | chromosome:chrV:12272731:12272820:1 | Opposite_strand|Intronic_non-coding|NM_074155|F47B8.10 ## Opposite_strand|Intronic_coding|NM_001028773|F47B8.14 ## Same_strand|Intronic_coding|NM_001113262|Fib-h ## {Repeats: no} ## {MIR: cbr-mir-241} |
| cremanei | chromosome:chrUn:140421352:140421481:1 | Opposite_strand|Intronic_coding|NM_182407 |
| celegans | chromosome:chrV:14366165:14366262:-1 | intergenic ## {MIR: cel-mir-241} |
| cbrenneri | chromosome:chrUn:189379036:189379156:1 | intergenic |
| cjaponica | chromosome:chrUn:25919604:25919725:-1 | Same_strand|Intronic_coding|NM_001004193 |
| ppacificus | chromosome:chrUn:105693728:105693855:1 | Opposite_strand|Intronic_coding|NM_001060141 |
| Back to summary page | candidate miRBase miRNAs: | Page 1 | Page 2 | Page 3 |
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