miRNA display CGI


Results 1 - 20 of 28 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
1506 5' -65.6 NC_001335.1 + 29012 0.66 0.24439
Target:  5'- gGGCCGGCgGcuGCCgGUGgacaGCUCGCgGAc -3'
miRNA:   3'- gCCGGCCGgU--CGGgCGC----UGAGCGgUU- -5'
1506 5' -65.6 NC_001335.1 + 17215 0.66 0.238449
Target:  5'- gGGCCGucGCCAGCgCCGgGAUgugcgggGCCAGa -3'
miRNA:   3'- gCCGGC--CGGUCG-GGCgCUGag-----CGGUU- -5'
1506 5' -65.6 NC_001335.1 + 9629 0.66 0.237862
Target:  5'- aCGGCaaCGGCCAGggugucauCCCGCGugaacguGCUCGCa-- -3'
miRNA:   3'- -GCCG--GCCGGUC--------GGGCGC-------UGAGCGguu -5'
1506 5' -65.6 NC_001335.1 + 369 0.66 0.23263
Target:  5'- aGGCCGcGCCAGUgCGCGGCcCuaUAGa -3'
miRNA:   3'- gCCGGC-CGGUCGgGCGCUGaGcgGUU- -5'
1506 5' -65.6 NC_001335.1 + 1841 0.66 0.23263
Target:  5'- gGGCUgugGGCCAGCCUGUcgaagaucgaggGGCUgGUCGAu -3'
miRNA:   3'- gCCGG---CCGGUCGGGCG------------CUGAgCGGUU- -5'
1506 5' -65.6 NC_001335.1 + 26673 0.66 0.23263
Target:  5'- aCGGCCGGCUcaAGgCCGUucGGCUCGguccCCGg -3'
miRNA:   3'- -GCCGGCCGG--UCgGGCG--CUGAGC----GGUu -5'
1506 5' -65.6 NC_001335.1 + 32960 0.66 0.226931
Target:  5'- cCGaGCCGGCCccggcuccugAGCCUGaGACcgCGCCGu -3'
miRNA:   3'- -GC-CGGCCGG----------UCGGGCgCUGa-GCGGUu -5'
1506 5' -65.6 NC_001335.1 + 2404 0.66 0.21054
Target:  5'- cCGGCCuaGCCGGCCCaGCucacucCUUGCCGAc -3'
miRNA:   3'- -GCCGGc-CGGUCGGG-CGcu----GAGCGGUU- -5'
1506 5' -65.6 NC_001335.1 + 46029 0.67 0.200188
Target:  5'- cCGGCgGGCUucGCCCuucgGUGAUUCGUCAc -3'
miRNA:   3'- -GCCGgCCGGu-CGGG----CGCUGAGCGGUu -5'
1506 5' -65.6 NC_001335.1 + 45172 0.67 0.200188
Target:  5'- cCGGCCcuuGCCAGCUCGa-ACUCGaCCAc -3'
miRNA:   3'- -GCCGGc--CGGUCGGGCgcUGAGC-GGUu -5'
1506 5' -65.6 NC_001335.1 + 45733 0.67 0.190281
Target:  5'- uGGCCGaacuGCCAGUCuCGUGAg-CGCCAGc -3'
miRNA:   3'- gCCGGC----CGGUCGG-GCGCUgaGCGGUU- -5'
1506 5' -65.6 NC_001335.1 + 48293 0.67 0.187394
Target:  5'- gCGGCCGGCCGGCCgaaccacacccuuggCGUGG---GCCAGc -3'
miRNA:   3'- -GCCGGCCGGUCGG---------------GCGCUgagCGGUU- -5'
1506 5' -65.6 NC_001335.1 + 1908 0.67 0.180808
Target:  5'- aGGCUGGCCcacAGCCCcaCGcCgUCGCCAGg -3'
miRNA:   3'- gCCGGCCGG---UCGGGc-GCuG-AGCGGUU- -5'
1506 5' -65.6 NC_001335.1 + 2337 0.67 0.180808
Target:  5'- gGGCCGGCUcaGGCCgGCGACagGaacuaCCAGa -3'
miRNA:   3'- gCCGGCCGG--UCGGgCGCUGagC-----GGUU- -5'
1506 5' -65.6 NC_001335.1 + 19786 0.67 0.176229
Target:  5'- gGGCCGGCCAagugguguuuGCUgGUGACacuguUCGUCAAc -3'
miRNA:   3'- gCCGGCCGGU----------CGGgCGCUG-----AGCGGUU- -5'
1506 5' -65.6 NC_001335.1 + 9662 0.68 0.166949
Target:  5'- uCGGCCuuGGCCGcguaggugggaguGCUCGgGuCUCGCCAGa -3'
miRNA:   3'- -GCCGG--CCGGU-------------CGGGCgCuGAGCGGUU- -5'
1506 5' -65.6 NC_001335.1 + 31081 0.69 0.145834
Target:  5'- gGGCCGGUCucaggcuugaccugAGCCaGCGcCUUGCCGAa -3'
miRNA:   3'- gCCGGCCGG--------------UCGGgCGCuGAGCGGUU- -5'
1506 5' -65.6 NC_001335.1 + 31876 0.69 0.143185
Target:  5'- cCGGCUGGCUga-CCGgGGCUUGCCGc -3'
miRNA:   3'- -GCCGGCCGGucgGGCgCUGAGCGGUu -5'
1506 5' -65.6 NC_001335.1 + 27406 0.69 0.134788
Target:  5'- aGGCaaucgaugaGGCCacgucgaaggacgaGGCCCGUGACcgCGCCGAg -3'
miRNA:   3'- gCCGg--------CCGG--------------UCGGGCGCUGa-GCGGUU- -5'
1506 5' -65.6 NC_001335.1 + 38353 0.69 0.132324
Target:  5'- gGGCUGGCCGGCCgaGCGGaacuaaGCCGu -3'
miRNA:   3'- gCCGGCCGGUCGGg-CGCUgag---CGGUu -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.