other hairpins
block2380 [novel_shortStem]
| 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 |
| no | 0.753 | no | no | 0.33/0.33 | 21/21/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 3 | 14 | 5arm | 1 | nd | 0.24 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ----CAUACUU-------------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| ---TCATACTTGGAAATTGTGTTG------------------------------------------------------------------- | 21 | 1 | |
| cbriggsae | tatTCATACTTGGAAATTGTGTTGtgttaactttgagacagtttatctcgtttcctgcaatagatatcaaaaagtggtcaaaaatgattaa | ||
| ******************************************************************************************* | |||
| ----------------------------------------------------------------------------------------------------- | NM_182297 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_005650 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_181492 | ||
| cbriggsae | ((.((((..((((..((((((((.(((......(((((.......)))))......)))...))))).....)))..))))..)))).)). | 0.410 -12.00 |
| cbriggsae | chromosome:chrIV:1189963:1190053:1 | Opposite_strand|Intronic_non-coding|NM_182297|B0546.4 ## Same_strand|Intronic_non-coding|NM_005650|TCF20 ## {Repeats: no} |
block2538 [novel_shortStem]
| 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 |
| no | 0.819 | no | no | 0.40/0.40 | 20/20/1.00 | 0.0 | 0.0 | 4 | 0 | 1 | 0 | 0 | 11 | 3arm | 1 | nd | 0.21 | 1 | 4 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------------------------------------UUUGCAG------------ | 4 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| ------------------------------------------------------TTTTGCAGCGTTGTGTATTC | 20 | 4 | |
| cbriggsae | gaaaaccactgtttcgaaaatctgatagtttttttggctagtagctagcgtaacTTTTGCAGCGTTGTGTATTC | ||
| ************************************************************************** | |||
| ------------------------------------------------------------------------------------ | NM_016802 | ||
| ------------------------------------------------------------------------------------ | NM_012749 | ||
| cbriggsae | (((.((((.((((.((((........((((...(((((.....)))))...)))))))).)))).)).)).))) | 0.460 -10.70 |
| cbriggsae | chromosome:chrIV:3654947:3655020:1 | Opposite_strand|Intronic_non-coding|NM_016802|Rhoa ## Opposite_strand|Intronic_coding|NM_012749|Ncl ## {Repeats: no} |
block2669 [novel_shortStem]
| 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 |
| no | 0.028 | no | no | 0.43/0.43 | 21/21/1.00 | 0.0 | 0.0 | 2 | 0 | 1 | 0 | 1 | 14 | 3arm | 1 | nd | 0.19 | 2 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------------------CCGUGUC-------------- | 2 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| ----------------------------------------------------------------TCCGTGTCTTGGTTCTATTAG- | 21 | 2 | |
| cbriggsae | ctatagaaaaagatttgcggtttcaaaaaattgacatatttgataaacgaatgcaaaatgttaaTCCGTGTCTTGGTTCTATTAGa | ||
| ************************************************************************************** | |||
| ------------------------------------------------------------------------------------------------ | NM_066961 | ||
| ------------------------------------------------------------------------------------------------ | NM_073293 | ||
| ------------------------------------------------------------------------------------------------ | NM_171337 | ||
| cbriggsae | ((((((((.(((((..((((.........((((((((.((((((......)).)))))))))))))))))))))..)))))).)). | 0.970 -18.00 |
| cbriggsae | chromosome:chrIV:8806746:8806831:1 | Opposite_strand|Intronic_non-coding|NM_066961|W09D10.4 ## Opposite_strand|Intronic_coding|NM_073293|C35A5.3 ## {Repeats: no} |
block2854 [novel_shortStem]
| 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 |
| no | 0.321 | no | no | 0.45/0.45 | 22/22/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 0 | 14 | 5arm | 2 | nd | 0.27 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -UUCGCGA------------------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| GTTCGCGATTCATCGTCTTCTT---------------------------------------------------------- | 22 | 1 | |
| cbriggsae | GTTCGCGATTCATCGTCTTCTTcgtcttcttcgtggtaatttctgttgttgttgttgttggtggatgtggatggcgtaca | ||
| ******************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_079659 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_206502 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_169746 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_169747 | ||
| ------------------------------------------------------------------------------------------ | NM_001095500 | ||
| ------------------------------------------------------------------------------------------ | NM_001024205 | ||
| ------------------------------------------------------------------------------------------ | NM_001077467 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_080629 | ||
| ..........................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<-------------------- | NM_067727 | ||
| ------------------------------------------------------------------------------------------ | NM_201478 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_080630 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_067556 | ||
| ------------------------------------------------------------------------------------------ | NM_001078490 | ||
| ------------------------------------------------------------------------------------------ | NM_001093393 | ||
| ...........................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<------------------------ | NM_057410 | ||
| ...........................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<------------------------ | NM_057411 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_060547 | ||
| ------------------------------------------------------------------------------------------ | NM_001080495 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_001854 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_059112 | ||
| ------------------------------------------------------------------------------------------ | NM_002069 | ||
| ------------------------------------------------------------------------------------------ | NM_001043433 | ||
| cbriggsae | ((.(((.(((((.((((..((.((.......((.((.....))...)).......))..))..))))))))).))).)). | 0.850 -15.94 |
| cbriggsae | chromosome:chrIV:14915918:14915997:1 | Same_strand|Intronic_non-coding|NM_079659|cher ## Opposite_strand|Intronic_coding|NM_001095500|LOC496349 ## Opposite_strand|Intronic_non-coding|NM_001024205|Nufip2 ## Same_strand|Intronic_coding|NM_080629|COL11A1 ## Opposite_strand|UTR_non-coding|NM_057410|Egfr ## {Repeats: no} |
block3310 [novel_shortStem]
| 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 |
| no | 0.701 | no | no | 0.55/0.55 | 22/22/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 1 | 16 | 5arm | 2 | nd | 0.27 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --AUUUCGG----------------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| -GATTTCGGTGAGCTCCGTTTGG--------------------------------------------------------------------- | 22 | 1 | |
| cbriggsae | tGATTTCGGTGAGCTCCGTTTGGtacattgcggcatttctcttgaattctgtggcacgcaaaattgactgtagatcgttgctgattgcaatt | ||
| ******************************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_071086 | ||
| cbriggsae | .((((.((((.(((..((..((((.(((((((((..(((....))).......)).)))))...)))))).....))..))).)))).)))) | 0.400 -18.50 |
| cbriggsae | chromosome:chrUn:6257339:6257430:-1 | Same_strand|Intronic_coding|NM_071086|srw-99 ## {Repeats: no} |
block3331 [novel_shortStem]
| 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 |
| no | 0.562 | no | no | 0.41/0.41 | 22/22/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 0 | 20 | 5arm | 1 | nd | 0.23 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -UUGAUCU--------------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| ATTGATCTTGAGTTGGGCAACT------------------------------------------------------------------- | 22 | 1 | |
| cbriggsae | ATTGATCTTGAGTTGGGCAACTgtgtagaaaaattctctttgaaagaacaaacgtgatgtcggtgagcagattgttgttttctgatcga | ||
| ***************************************************************************************** | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_202770 | ||
| cbriggsae | .((((((..(((...(((((((((...((...(((...((((......))))...))).)).....)))).)))))...))).)))))) | 0.420 -15.90 |
| cbriggsae | chromosome:chrUn:6567613:6567701:-1 | Same_strand|Intronic_coding|NM_202770|AT4G01985 ## {Repeats: no} |
block3395 [novel_shortStem]
| 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 |
| no | 0.054 | no | no | 0.38/0.38 | 21/21/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 2 | 6 | 5arm | 1 | nd | 0.19 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---AUUUUUG------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| --AATTTTTGAGGCACGTAACGT------------------------------------------ | 21 | 1 | |
| cbriggsae | tgAATTTTTGAGGCACGTAACGTgccttgtatttttgaagcacgtgccttgtatttttgagattc | ||
| ***************************************************************** | |||
| cbriggsae | .(((((((.((((.(((..((((((.(((......))).))))))....))).)))).))))))) | 0.820 -15.50 |
| cbriggsae | chromosome:chrUn:1502079:1502143:1 | {SimpF: trf} |
block4025 [novel_shortStem]
| 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 |
| no | 0.193 | no | no | 0.30/0.30 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 0 | 9 | 5arm | 5 | nd | 0.10 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -AAAGUUU---------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| GAAAGTTTGGTAAAAGAAAG---------------------------------------------------- | 20 | 1 | |
| cbriggsae | GAAAGTTTGGTAAAAGAAAGcattttccttcagaggtacagtgacttttctttcacatcactgatattttct | ||
| ************************************************************************ | |||
| ---------------------------------------------------------------------------------- | NM_001027169 | ||
| ---------------------------------------------------------------------------------- | NM_062383 | ||
| ---------------------------------------------------------------------------------- | NM_059169 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_072496 | ||
| ---------------------------------------------------------------------------------- | NM_001027170 | ||
| ---------------------------------------------------------------------------------- | NM_001014737 | ||
| ---------------------------------------------------------------------------------- | NM_001014738 | ||
| ---------------------------------------------------------------------------------- | NM_001014739 | ||
| ---------------------------------------------------------------------------------- | NM_080349 | ||
| ---------------------------------------------------------------------------------- | NM_167375 | ||
| ---------------------------------------------------------------------------------- | NM_167376 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_071774 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_071305 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_071443 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_071442 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_071441 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_071439 | ||
| cbriggsae | ((((((((((((((..((((((((..(((....)))...)))).))))..)))......))))).)))))). | 0.940 -12.00 |
| cbriggsae | chromosome:chrV:4902049:4902120:1 | Opposite_strand|Intronic_coding|NM_001027169|nhr-109 ## Same_strand|Intronic_coding|NM_072496|srt-6 ## {Repeats: no} |
block4539 [novel_shortStem]
| 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 |
| no | 0.823 | no | no | 0.65/0.65 | 23/23/1.00 | 0.0 | 0.0 | 2 | 0 | 1 | 0 | 1 | 1 | 3arm | 1 | nd | 0.26 | 2 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------GGCUGAG---------------- | 2 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| --------------------------------------GGGCTGAGACTCCGAAACCACGG- | 23 | 2 | |
| cbriggsae | ctcgtcgttgaatccgggtccacgaaggctgacacgacGGGCTGAGACTCCGAAACCACGGg | ||
| ************************************************************** | |||
| ------------------------------------------------------------------------ | NM_001108848 | ||
| ------------------------------------------------------------------------ | NM_139146 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_174363 | ||
| cbriggsae | (((((.(((.....((((((.....((.(((......))).))..))).))).))).))))) | 0.840 -16.50 |
| cbriggsae | chromosome:chrX:12378057:12378118:-1 | Opposite_strand|Intronic_non-coding|NM_001108848|Elavl1 ## Same_strand|Intronic_non-coding|NM_174363|INHBA ## {Repeats: no} |
block4578 [novel_shortStem]
| 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 |
| no | 0.626 | no | no | 0.52/0.52 | 21/21/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 0 | 13 | 3arm | 1 | nd | 0.10 | 1 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------------------------------------------AGUAGGU------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| ------------------------------------------------------------GAGTAGGTGGCAATTCAAGCG | 21 | 1 | |
| cbriggsae | gcgttcgagttttataggtgagattattaacggtgaaaagaggtggacttctttcaaataGAGTAGGTGGCAATTCAAGCG | ||
| ********************************************************************************* | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_003107 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_011438 | ||
| cbriggsae | .((((.(((((((((........(((((.....((.(((((((....))))))))).....))))))))).))))).)))) | 0.420 -12.80 |
| cbriggsae | chromosome:chrX:13763250:13763330:-1 | Same_strand|Intronic_non-coding|NM_003107|SOX4 ## {Repeats: no} |
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©2008 InteRNA Genomics B.V.