miRNA display CGI


Results 1 - 20 of 32 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
22641 5' -55.2 NC_005091.1 + 32967 0.66 0.787887
Target:  5'- uCCgcgAGAgcggCGUUGa-GUUGCGCCCGUa -3'
miRNA:   3'- -GGa--UUUa---GCAGCggCAGCGCGGGCAc -5'
22641 5' -55.2 NC_005091.1 + 44771 0.66 0.778149
Target:  5'- gCCgccguGGUCGUUGCCuUCGUGCCUu-- -3'
miRNA:   3'- -GGau---UUAGCAGCGGcAGCGCGGGcac -5'
22641 5' -55.2 NC_005091.1 + 18451 0.66 0.778149
Target:  5'- --gGAAUUGUCGCCGggUCGUaGUCCGa- -3'
miRNA:   3'- ggaUUUAGCAGCGGC--AGCG-CGGGCac -5'
22641 5' -55.2 NC_005091.1 + 34938 0.66 0.768264
Target:  5'- aCUUGAAggcgCGUCGCgGcucUCGCGagagaCCGUGu -3'
miRNA:   3'- -GGAUUUa---GCAGCGgC---AGCGCg----GGCAC- -5'
22641 5' -55.2 NC_005091.1 + 39974 0.66 0.768264
Target:  5'- cCCUucGAcgCGUCGCCGaucUUGCGCaggGUGa -3'
miRNA:   3'- -GGA--UUuaGCAGCGGC---AGCGCGgg-CAC- -5'
22641 5' -55.2 NC_005091.1 + 31875 0.66 0.768264
Target:  5'- aCCgu-GUCGUCGCgcuCGUCGgcggccUGCUCGUGc -3'
miRNA:   3'- -GGauuUAGCAGCG---GCAGC------GCGGGCAC- -5'
22641 5' -55.2 NC_005091.1 + 17621 0.66 0.758245
Target:  5'- aCCUcGAugaucUCGUCGCCGauaaUCGCggccauGCCCGg- -3'
miRNA:   3'- -GGAuUU-----AGCAGCGGC----AGCG------CGGGCac -5'
22641 5' -55.2 NC_005091.1 + 44536 0.66 0.758245
Target:  5'- gCUGc--CGUCGCCuucGUCGCcGCCCGc- -3'
miRNA:   3'- gGAUuuaGCAGCGG---CAGCG-CGGGCac -5'
22641 5' -55.2 NC_005091.1 + 29858 0.67 0.737845
Target:  5'- uCCgGAAaCGUCaccgaGCCGUCGCGCUgcaaUGUGa -3'
miRNA:   3'- -GGaUUUaGCAG-----CGGCAGCGCGG----GCAC- -5'
22641 5' -55.2 NC_005091.1 + 36634 0.67 0.727486
Target:  5'- gCCUGuacaaccggggcGAcCGUCGCCGUCgauacuggaaGUGCCCGc- -3'
miRNA:   3'- -GGAU------------UUaGCAGCGGCAG----------CGCGGGCac -5'
22641 5' -55.2 NC_005091.1 + 45699 0.67 0.727486
Target:  5'- uCCUGuacgCGUCgGCCG-CGCGCCgCGc- -3'
miRNA:   3'- -GGAUuua-GCAG-CGGCaGCGCGG-GCac -5'
22641 5' -55.2 NC_005091.1 + 52549 0.67 0.717034
Target:  5'- gCCUAGAaUCucauucaugggGUCGCCGcccggCGCGCCC-UGa -3'
miRNA:   3'- -GGAUUU-AG-----------CAGCGGCa----GCGCGGGcAC- -5'
22641 5' -55.2 NC_005091.1 + 6728 0.67 0.706502
Target:  5'- -------gGUCGCCGUCGCcaacaagaagcaGCCCGg- -3'
miRNA:   3'- ggauuuagCAGCGGCAGCG------------CGGGCac -5'
22641 5' -55.2 NC_005091.1 + 54108 0.67 0.6959
Target:  5'- --gAAAaCGUgCGCCGUCGCGCUgGa- -3'
miRNA:   3'- ggaUUUaGCA-GCGGCAGCGCGGgCac -5'
22641 5' -55.2 NC_005091.1 + 12728 0.67 0.694836
Target:  5'- uCCgu-GUUGuUCGUCGUCGCGuucauucgcuggcCCCGUGc -3'
miRNA:   3'- -GGauuUAGC-AGCGGCAGCGC-------------GGGCAC- -5'
22641 5' -55.2 NC_005091.1 + 51716 0.68 0.663778
Target:  5'- aCUGGAaagccgcuucauUCGgcauaucaUGCCGaaUCGCGCCCGUGc -3'
miRNA:   3'- gGAUUU------------AGCa-------GCGGC--AGCGCGGGCAC- -5'
22641 5' -55.2 NC_005091.1 + 31094 0.68 0.662701
Target:  5'- gCCgUAGAUCGUCGCCaUUGCGCacauccauucgauCCGg- -3'
miRNA:   3'- -GG-AUUUAGCAGCGGcAGCGCG-------------GGCac -5'
22641 5' -55.2 NC_005091.1 + 12463 0.68 0.653
Target:  5'- gCCguAGUCGcCGCCGUCgcacuggccGCGCUCGUc -3'
miRNA:   3'- -GGauUUAGCaGCGGCAG---------CGCGGGCAc -5'
22641 5' -55.2 NC_005091.1 + 12579 0.68 0.653
Target:  5'- aUUGAAUcugCGUgGCCGauucgCGCGCCCGg- -3'
miRNA:   3'- gGAUUUA---GCAgCGGCa----GCGCGGGCac -5'
22641 5' -55.2 NC_005091.1 + 42656 0.68 0.653
Target:  5'- gCCcGAcgCGUCGCCGUCGCGgaagaaaaaCuuGUc -3'
miRNA:   3'- -GGaUUuaGCAGCGGCAGCGC---------GggCAc -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.