miRNA display CGI


Results 1 - 20 of 34 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
23186 3' -56.9 NC_005259.1 + 61499 0.66 0.747122
Target:  5'- aCCguugaggCGCUCgGUGugccggucgaccuCGUCGGGAauuuccucgucUCGGGCg -3'
miRNA:   3'- -GGa------GCGGGgUAU-------------GUAGCCCU-----------AGCCCG- -5'
23186 3' -56.9 NC_005259.1 + 158 0.66 0.727966
Target:  5'- gCUCGCCCgg-----CGGGGUCcGGCa -3'
miRNA:   3'- gGAGCGGGguauguaGCCCUAGcCCG- -5'
23186 3' -56.9 NC_005259.1 + 58652 0.66 0.726948
Target:  5'- cCCUCgcgguaGCCCgGUGCAcCGGGGUgcagcuuccaucgCGGGg -3'
miRNA:   3'- -GGAG------CGGGgUAUGUaGCCCUA-------------GCCCg -5'
23186 3' -56.9 NC_005259.1 + 63210 0.66 0.707459
Target:  5'- gCCUcgacCGCCUCGUcagACAgaUCGGGGUCGcuGGUc -3'
miRNA:   3'- -GGA----GCGGGGUA---UGU--AGCCCUAGC--CCG- -5'
23186 3' -56.9 NC_005259.1 + 67363 0.66 0.703322
Target:  5'- aCCUCGCgCCGgaucuuggggaaauUACGcuuggccUCGGGGgugucaCGGGCc -3'
miRNA:   3'- -GGAGCGgGGU--------------AUGU-------AGCCCUa-----GCCCG- -5'
23186 3' -56.9 NC_005259.1 + 62683 0.67 0.686679
Target:  5'- aCCUCGUCCUcgaGUGCGgugucccaucCGGcGAUCaGGCg -3'
miRNA:   3'- -GGAGCGGGG---UAUGUa---------GCC-CUAGcCCG- -5'
23186 3' -56.9 NC_005259.1 + 64211 0.67 0.686679
Target:  5'- aCCUCGCCggucggcagCCcgGUAUCGGGGUCGauaGCc -3'
miRNA:   3'- -GGAGCGG---------GGuaUGUAGCCCUAGCc--CG- -5'
23186 3' -56.9 NC_005259.1 + 65562 0.67 0.686679
Target:  5'- -aUCGgCCCAUagACAccgaGGGA-CGGGCg -3'
miRNA:   3'- ggAGCgGGGUA--UGUag--CCCUaGCCCG- -5'
23186 3' -56.9 NC_005259.1 + 55612 0.67 0.676213
Target:  5'- gUCUCGCgCgCC-UugGcCGGGAUCaGGGCc -3'
miRNA:   3'- -GGAGCG-G-GGuAugUaGCCCUAG-CCCG- -5'
23186 3' -56.9 NC_005259.1 + 11226 0.67 0.665708
Target:  5'- --aCGCCgCAguccUCGGGcUCGGGCa -3'
miRNA:   3'- ggaGCGGgGUauguAGCCCuAGCCCG- -5'
23186 3' -56.9 NC_005259.1 + 61062 0.67 0.65939
Target:  5'- aCCUUGUgCCGgGCAUCGGcAuaggcgucgucggccUCGGGCu -3'
miRNA:   3'- -GGAGCGgGGUaUGUAGCCcU---------------AGCCCG- -5'
23186 3' -56.9 NC_005259.1 + 23552 0.67 0.655173
Target:  5'- gCCUCGaCCgCA-ACAUCacaaGGAUCGaGGCg -3'
miRNA:   3'- -GGAGC-GGgGUaUGUAGc---CCUAGC-CCG- -5'
23186 3' -56.9 NC_005259.1 + 61391 0.67 0.64462
Target:  5'- --aCGCCCgAUGcCGUCGGuGuccucgCGGGCa -3'
miRNA:   3'- ggaGCGGGgUAU-GUAGCC-Cua----GCCCG- -5'
23186 3' -56.9 NC_005259.1 + 32558 0.67 0.64462
Target:  5'- --cCGCCCCGgcgaGCG-CGGGGauagcgUUGGGCa -3'
miRNA:   3'- ggaGCGGGGUa---UGUaGCCCU------AGCCCG- -5'
23186 3' -56.9 NC_005259.1 + 18107 0.68 0.635112
Target:  5'- gCCgUCGCgCUCAUcgacuacgagggcaACAUCGGcaaggccauggacgaGAUCGGGCu -3'
miRNA:   3'- -GG-AGCG-GGGUA--------------UGUAGCC---------------CUAGCCCG- -5'
23186 3' -56.9 NC_005259.1 + 11416 0.68 0.634055
Target:  5'- gCUCGUggCCgGUGCAaCGGGGaugcUUGGGCc -3'
miRNA:   3'- gGAGCG--GGgUAUGUaGCCCU----AGCCCG- -5'
23186 3' -56.9 NC_005259.1 + 52252 0.68 0.634055
Target:  5'- cCCg-GCCCCucuCAggGGGGcCGGGCa -3'
miRNA:   3'- -GGagCGGGGuauGUagCCCUaGCCCG- -5'
23186 3' -56.9 NC_005259.1 + 34884 0.68 0.62349
Target:  5'- aCCggggUGCCUCGgGCAggaCGGGccgcUCGGGCa -3'
miRNA:   3'- -GGa---GCGGGGUaUGUa--GCCCu---AGCCCG- -5'
23186 3' -56.9 NC_005259.1 + 28858 0.68 0.62349
Target:  5'- --cCGCCCCAccgagggACGUUGGGc-CGGGUa -3'
miRNA:   3'- ggaGCGGGGUa------UGUAGCCCuaGCCCG- -5'
23186 3' -56.9 NC_005259.1 + 57204 0.68 0.591867
Target:  5'- aCCUCGaCgCCGUugAaaaaccgguugUCGGGGUCGGa- -3'
miRNA:   3'- -GGAGC-GgGGUAugU-----------AGCCCUAGCCcg -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.