miRNA display CGI


Results 1 - 20 of 41 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
1510 3' -50.6 NC_001335.1 + 1076 0.67 0.874014
Target:  5'- gCCGAUGGGaggCCGGGGAaguaaaGGCGGccccGGUCc -3'
miRNA:   3'- -GGCUGCUUga-GGUUCCU------UCGCU----UCAG- -5'
1510 3' -50.6 NC_001335.1 + 1188 0.74 0.549916
Target:  5'- -gGugGAGCUgCAGGGAgcAGCGGAGg- -3'
miRNA:   3'- ggCugCUUGAgGUUCCU--UCGCUUCag -5'
1510 3' -50.6 NC_001335.1 + 2256 0.74 0.537802
Target:  5'- uCCGACGAgaagcucgccgaaGC-CCAGcGGGccAGCGAGGUCg -3'
miRNA:   3'- -GGCUGCU-------------UGaGGUU-CCU--UCGCUUCAG- -5'
1510 3' -50.6 NC_001335.1 + 2562 0.66 0.934932
Target:  5'- cCCGACGGcgggaacuuagaGCcCgGAGGAAGCGAc--- -3'
miRNA:   3'- -GGCUGCU------------UGaGgUUCCUUCGCUucag -5'
1510 3' -50.6 NC_001335.1 + 3082 0.67 0.901853
Target:  5'- aCCGACGuGCUcaagcagcgccucgCCAAGGcGAGCGGcgggagcugauGGUCc -3'
miRNA:   3'- -GGCUGCuUGA--------------GGUUCC-UUCGCU-----------UCAG- -5'
1510 3' -50.6 NC_001335.1 + 4871 0.77 0.377017
Target:  5'- cUCGuCGGGCUCCAGcacGGAggcGGCGggGUCu -3'
miRNA:   3'- -GGCuGCUUGAGGUU---CCU---UCGCuuCAG- -5'
1510 3' -50.6 NC_001335.1 + 6594 0.74 0.527959
Target:  5'- aCGACGAA-UCUgagaAAGGAGGCGggGUg -3'
miRNA:   3'- gGCUGCUUgAGG----UUCCUUCGCuuCAg -5'
1510 3' -50.6 NC_001335.1 + 6727 0.66 0.923411
Target:  5'- gCCGAUGAugUgaGGGGGAGaCGggG-Ca -3'
miRNA:   3'- -GGCUGCUugAggUUCCUUC-GCuuCaG- -5'
1510 3' -50.6 NC_001335.1 + 7323 0.67 0.87641
Target:  5'- aCGACGAACgucgggcgguuacccUCCAucgacgcGGGGcuCGAGGUCg -3'
miRNA:   3'- gGCUGCUUG---------------AGGU-------UCCUucGCUUCAG- -5'
1510 3' -50.6 NC_001335.1 + 7899 0.66 0.917212
Target:  5'- cCCGuCGAAC-CCGAGG--GUGAuccGGUCa -3'
miRNA:   3'- -GGCuGCUUGaGGUUCCuuCGCU---UCAG- -5'
1510 3' -50.6 NC_001335.1 + 8149 0.69 0.801052
Target:  5'- aCUG-CGAGCgacUCGAGGAcgcgguccuugagGGCGAGGUCu -3'
miRNA:   3'- -GGCuGCUUGa--GGUUCCU-------------UCGCUUCAG- -5'
1510 3' -50.6 NC_001335.1 + 8482 0.66 0.940255
Target:  5'- uUCGAUcucCUCCAuaccGGGGAGCGGugcuGUCa -3'
miRNA:   3'- -GGCUGcuuGAGGU----UCCUUCGCUu---CAG- -5'
1510 3' -50.6 NC_001335.1 + 9857 0.66 0.917212
Target:  5'- gCCGugGGGCUC--GGGGAGCcugGGAccGUCg -3'
miRNA:   3'- -GGCugCUUGAGguUCCUUCG---CUU--CAG- -5'
1510 3' -50.6 NC_001335.1 + 11230 0.7 0.761211
Target:  5'- gCCGACcAGCUCCAgacGGGAcuucacugacucAGCGAugcuGUCc -3'
miRNA:   3'- -GGCUGcUUGAGGU---UCCU------------UCGCUu---CAG- -5'
1510 3' -50.6 NC_001335.1 + 11698 0.67 0.903943
Target:  5'- aUCGucGCGAuCUUguGGGggGCGAuGGUCu -3'
miRNA:   3'- -GGC--UGCUuGAGguUCCuuCGCU-UCAG- -5'
1510 3' -50.6 NC_001335.1 + 12146 0.66 0.929317
Target:  5'- gCCGACGAcCgugCCc--GAGGCGAcguGGUCg -3'
miRNA:   3'- -GGCUGCUuGa--GGuucCUUCGCU---UCAG- -5'
1510 3' -50.6 NC_001335.1 + 12500 0.69 0.781954
Target:  5'- uUGGCGAACUCCucGGAaaccucGGCGAAa-- -3'
miRNA:   3'- gGCUGCUUGAGGuuCCU------UCGCUUcag -5'
1510 3' -50.6 NC_001335.1 + 14772 0.68 0.829805
Target:  5'- gCGGCGAACUCCAgccuuguGGGcgugaugccccAGGCGcauGUCg -3'
miRNA:   3'- gGCUGCUUGAGGU-------UCC-----------UUCGCuu-CAG- -5'
1510 3' -50.6 NC_001335.1 + 19222 0.72 0.66689
Target:  5'- aCCGGgGAGC-CCGAcucGGAAGCGAucugcuccucgcgccGGUCg -3'
miRNA:   3'- -GGCUgCUUGaGGUU---CCUUCGCU---------------UCAG- -5'
1510 3' -50.6 NC_001335.1 + 20086 0.68 0.838964
Target:  5'- gCUGAUGGuCUUCGAGGAucuucuuGGCGguGUCg -3'
miRNA:   3'- -GGCUGCUuGAGGUUCCU-------UCGCuuCAG- -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.