miRNA display CGI


Results 1 - 20 of 22 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
21281 3' -56.8 NC_004778.3 + 48772 0.66 0.893483
Target:  5'- gGUCGCGUCGCuauGGUcGCaCGGCAagUCGAa -3'
miRNA:   3'- -CGGUGCAGCG---CCAcUG-GCUGUg-AGCU- -5'
21281 3' -56.8 NC_004778.3 + 16425 0.66 0.886812
Target:  5'- aCCGCGUCGUaGUGcCCGuCGCaCGAg -3'
miRNA:   3'- cGGUGCAGCGcCACuGGCuGUGaGCU- -5'
21281 3' -56.8 NC_004778.3 + 33676 0.66 0.879921
Target:  5'- aGCCGCGagUgGUGGUGACCacguauGACACguugCGc -3'
miRNA:   3'- -CGGUGC--AgCGCCACUGG------CUGUGa---GCu -5'
21281 3' -56.8 NC_004778.3 + 117967 0.66 0.879921
Target:  5'- uGUCGuCGUCGCuGGUGcGCCGcuuGCGCUUGu -3'
miRNA:   3'- -CGGU-GCAGCG-CCAC-UGGC---UGUGAGCu -5'
21281 3' -56.8 NC_004778.3 + 100401 0.66 0.879921
Target:  5'- uGCCGgG-C-CcGUGACCGGCACUUGGg -3'
miRNA:   3'- -CGGUgCaGcGcCACUGGCUGUGAGCU- -5'
21281 3' -56.8 NC_004778.3 + 50384 0.66 0.872093
Target:  5'- cGCCcuacgaaACGgcgCGUGGUGACCGuCGCgCGc -3'
miRNA:   3'- -CGG-------UGCa--GCGCCACUGGCuGUGaGCu -5'
21281 3' -56.8 NC_004778.3 + 34987 0.66 0.865498
Target:  5'- gGCCACccuaGUCgGCGaUGGCCGACAgUUUGAa -3'
miRNA:   3'- -CGGUG----CAG-CGCcACUGGCUGU-GAGCU- -5'
21281 3' -56.8 NC_004778.3 + 82381 0.66 0.865498
Target:  5'- aGUCAUGUCGaUGGgagUGGCCGGCAUUUc- -3'
miRNA:   3'- -CGGUGCAGC-GCC---ACUGGCUGUGAGcu -5'
21281 3' -56.8 NC_004778.3 + 11342 0.66 0.857976
Target:  5'- uCCACGUCGUGaUGGCUGuugauGCAUUCGu -3'
miRNA:   3'- cGGUGCAGCGCcACUGGC-----UGUGAGCu -5'
21281 3' -56.8 NC_004778.3 + 7520 0.66 0.857976
Target:  5'- --aGCGguaCGCGGUcGACCGGCACgcgcauUCGGa -3'
miRNA:   3'- cggUGCa--GCGCCA-CUGGCUGUG------AGCU- -5'
21281 3' -56.8 NC_004778.3 + 2381 0.67 0.833418
Target:  5'- uGCCGaaacuucCG-CGCGGUGGCCGACgugcccgcGCcCGAc -3'
miRNA:   3'- -CGGU-------GCaGCGCCACUGGCUG--------UGaGCU- -5'
21281 3' -56.8 NC_004778.3 + 6971 0.68 0.79119
Target:  5'- cGCC-CGUCGUGGUGuuuCCG-CGCgacgUGAc -3'
miRNA:   3'- -CGGuGCAGCGCCACu--GGCuGUGa---GCU- -5'
21281 3' -56.8 NC_004778.3 + 118770 0.68 0.763616
Target:  5'- uGCCACGcuucgggCGCGGcgcGGCCGGCGCg--- -3'
miRNA:   3'- -CGGUGCa------GCGCCa--CUGGCUGUGagcu -5'
21281 3' -56.8 NC_004778.3 + 22453 0.69 0.744648
Target:  5'- aCCAUGUCGuUGGUGGCgGGCGCg--- -3'
miRNA:   3'- cGGUGCAGC-GCCACUGgCUGUGagcu -5'
21281 3' -56.8 NC_004778.3 + 88404 0.7 0.685721
Target:  5'- uGCCACGUCG-GGcauguUGACUGGCACgcagccugCGGu -3'
miRNA:   3'- -CGGUGCAGCgCC-----ACUGGCUGUGa-------GCU- -5'
21281 3' -56.8 NC_004778.3 + 64184 0.71 0.635337
Target:  5'- -aCGCGuUCGUGGUGACgaaCGACGCgggCGAu -3'
miRNA:   3'- cgGUGC-AGCGCCACUG---GCUGUGa--GCU- -5'
21281 3' -56.8 NC_004778.3 + 28924 0.71 0.61511
Target:  5'- aGCCACGUC-Cu---GCCGACACUCGGg -3'
miRNA:   3'- -CGGUGCAGcGccacUGGCUGUGAGCU- -5'
21281 3' -56.8 NC_004778.3 + 88315 0.71 0.594933
Target:  5'- cGCCACGccuacCGaCGGUGACCa--ACUCGAg -3'
miRNA:   3'- -CGGUGCa----GC-GCCACUGGcugUGAGCU- -5'
21281 3' -56.8 NC_004778.3 + 64302 0.72 0.584881
Target:  5'- gGCCACGggCGCGacgcgcugaGUGACCGuuGCUUGGg -3'
miRNA:   3'- -CGGUGCa-GCGC---------CACUGGCugUGAGCU- -5'
21281 3' -56.8 NC_004778.3 + 9227 0.72 0.545069
Target:  5'- uGCUcCGUCGaCGGacucauUGAgCCGGCGCUCGAg -3'
miRNA:   3'- -CGGuGCAGC-GCC------ACU-GGCUGUGAGCU- -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.