miRNA display CGI


Results 1 - 20 of 75 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
28180 5' -58.6 NC_005887.1 + 964 0.77 0.102665
Target:  5'- gGCGUgcagcaCGAGGUGAUCGCCGacacGCGCa -3'
miRNA:   3'- gCGCA------GCUCCGCUAGCGGCaac-CGCG- -5'
28180 5' -58.6 NC_005887.1 + 1597 0.66 0.469403
Target:  5'- gCGCGgcgCGccaacGGCGAUCGCCucgacgcgGGCGg -3'
miRNA:   3'- -GCGCa--GCu----CCGCUAGCGGcaa-----CCGCg -5'
28180 5' -58.6 NC_005887.1 + 2631 0.69 0.311367
Target:  5'- aCGUGgcCGAGGCGAgucaguaccUGCUGgugGGCGCg -3'
miRNA:   3'- -GCGCa-GCUCCGCUa--------GCGGCaa-CCGCG- -5'
28180 5' -58.6 NC_005887.1 + 2813 0.68 0.359256
Target:  5'- gCGCGgaUUGGGGUacaGAgccggCGCCaGUUGGUGCg -3'
miRNA:   3'- -GCGC--AGCUCCG---CUa----GCGG-CAACCGCG- -5'
28180 5' -58.6 NC_005887.1 + 4887 0.66 0.509809
Target:  5'- uCGCGaCGA--UGGUCGCCGagggccGGCGCg -3'
miRNA:   3'- -GCGCaGCUccGCUAGCGGCaa----CCGCG- -5'
28180 5' -58.6 NC_005887.1 + 5938 0.7 0.289304
Target:  5'- uGUGUcgggCGAGGUGAUCGauaagcUCGcUGGCGCg -3'
miRNA:   3'- gCGCA----GCUCCGCUAGC------GGCaACCGCG- -5'
28180 5' -58.6 NC_005887.1 + 6305 0.76 0.11795
Target:  5'- gCGCGUCGAGGCcuugCGCCucgccGGCGCc -3'
miRNA:   3'- -GCGCAGCUCCGcua-GCGGcaa--CCGCG- -5'
28180 5' -58.6 NC_005887.1 + 6502 0.66 0.499563
Target:  5'- aGCGcaaucCGcAGGCGAUgaucuaCGCCGacgcGGCGCa -3'
miRNA:   3'- gCGCa----GC-UCCGCUA------GCGGCaa--CCGCG- -5'
28180 5' -58.6 NC_005887.1 + 6922 0.73 0.199236
Target:  5'- aCGCGucgcUCGAccugaucgacucgugGGCGAagGCCGUgcgcgGGCGCa -3'
miRNA:   3'- -GCGC----AGCU---------------CCGCUagCGGCAa----CCGCG- -5'
28180 5' -58.6 NC_005887.1 + 7109 0.71 0.235896
Target:  5'- gCGCGUggucuaaCGAGGCGGggcggCGCUGc-GGCGCc -3'
miRNA:   3'- -GCGCA-------GCUCCGCUa----GCGGCaaCCGCG- -5'
28180 5' -58.6 NC_005887.1 + 7211 0.74 0.150906
Target:  5'- uCGCGUgCGcAGGCGcuGUCGgCGUcgGGCGCa -3'
miRNA:   3'- -GCGCA-GC-UCCGC--UAGCgGCAa-CCGCG- -5'
28180 5' -58.6 NC_005887.1 + 8100 0.66 0.479356
Target:  5'- gCGCGcagcUCGccGCGcUCGCCGa-GGCGCc -3'
miRNA:   3'- -GCGC----AGCucCGCuAGCGGCaaCCGCG- -5'
28180 5' -58.6 NC_005887.1 + 8325 0.66 0.520141
Target:  5'- aCGCGcuguuucgCGAGGCauucGcgUGCCGUcUGGCGg -3'
miRNA:   3'- -GCGCa-------GCUCCG----CuaGCGGCA-ACCGCg -5'
28180 5' -58.6 NC_005887.1 + 8449 0.66 0.499563
Target:  5'- cCGCGUCaacGCGAUCGagCGcccGGCGCa -3'
miRNA:   3'- -GCGCAGcucCGCUAGCg-GCaa-CCGCG- -5'
28180 5' -58.6 NC_005887.1 + 8593 0.66 0.489411
Target:  5'- uCGU-UCGAcgcuGGCGAgcucUCGCCGUUgcucGGUGCa -3'
miRNA:   3'- -GCGcAGCU----CCGCU----AGCGGCAA----CCGCG- -5'
28180 5' -58.6 NC_005887.1 + 8869 0.68 0.359256
Target:  5'- gCGCccGUCGAGaucGCGA-CGCCGUacGCGCu -3'
miRNA:   3'- -GCG--CAGCUC---CGCUaGCGGCAacCGCG- -5'
28180 5' -58.6 NC_005887.1 + 10212 0.74 0.150906
Target:  5'- uCGCGUCGAuGCccgCGCCGgacGGCGCg -3'
miRNA:   3'- -GCGCAGCUcCGcuaGCGGCaa-CCGCG- -5'
28180 5' -58.6 NC_005887.1 + 11116 0.71 0.261822
Target:  5'- gCGCG-CGAagcuGGcCGAggCGCCGUggcGGCGCa -3'
miRNA:   3'- -GCGCaGCU----CC-GCUa-GCGGCAa--CCGCG- -5'
28180 5' -58.6 NC_005887.1 + 12559 0.67 0.421316
Target:  5'- gGCGUCGAcGGC---CGCCGgcauGCGCa -3'
miRNA:   3'- gCGCAGCU-CCGcuaGCGGCaac-CGCG- -5'
28180 5' -58.6 NC_005887.1 + 14206 0.7 0.296519
Target:  5'- gCGCGgccUCGgacaGGGCGGcgccgCGCUGUUcGGCGCg -3'
miRNA:   3'- -GCGC---AGC----UCCGCUa----GCGGCAA-CCGCG- -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.