miRNA display CGI


Results 1 - 20 of 40 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
24959 3' -58.5 NC_005284.1 + 57 0.7 0.302506
Target:  5'- cCGGCGCauccgccgGGcGGGCAACGaCGGACGg- -3'
miRNA:   3'- -GCCGCG--------UCaCCCGUUGCgGCUUGCag -5'
24959 3' -58.5 NC_005284.1 + 4482 0.69 0.365797
Target:  5'- uGGCucGCGGcgGcGGUAGCGCCGAAC-UCg -3'
miRNA:   3'- gCCG--CGUCa-C-CCGUUGCGGCUUGcAG- -5'
24959 3' -58.5 NC_005284.1 + 6522 0.66 0.547118
Target:  5'- aGGCuccuCAGUGcccgcacGGCAacGCGCCGucAGCGUCa -3'
miRNA:   3'- gCCGc---GUCAC-------CCGU--UGCGGC--UUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 7643 0.67 0.476478
Target:  5'- uGGUGCGucaguacacGUGGGCGGCGUCG---GUCa -3'
miRNA:   3'- gCCGCGU---------CACCCGUUGCGGCuugCAG- -5'
24959 3' -58.5 NC_005284.1 + 9500 0.7 0.309935
Target:  5'- gCGGCGaCAgcGUGGGuCGGCGCCcggcGAGCGcUCg -3'
miRNA:   3'- -GCCGC-GU--CACCC-GUUGCGG----CUUGC-AG- -5'
24959 3' -58.5 NC_005284.1 + 10932 0.66 0.548169
Target:  5'- -uGCGCAGgcccGCAugGCCGGccuCGUCg -3'
miRNA:   3'- gcCGCGUCacc-CGUugCGGCUu--GCAG- -5'
24959 3' -58.5 NC_005284.1 + 11567 0.67 0.48345
Target:  5'- gGaGCGCAGUGcGCAgaucgacgcggaGCucggcgacuacgcgGCCGAGCGUCa -3'
miRNA:   3'- gC-CGCGUCACcCGU------------UG--------------CGGCUUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 12059 0.66 0.527277
Target:  5'- uCGGCGC-GUGcGGCGAUGUCucagguguucgGAGCGaUCg -3'
miRNA:   3'- -GCCGCGuCAC-CCGUUGCGG-----------CUUGC-AG- -5'
24959 3' -58.5 NC_005284.1 + 12282 0.69 0.391775
Target:  5'- gCGcCGCAGUGGuGUcGCaGCCGGGCGUg -3'
miRNA:   3'- -GCcGCGUCACC-CGuUG-CGGCUUGCAg -5'
24959 3' -58.5 NC_005284.1 + 13298 0.66 0.547118
Target:  5'- uCGGaCGguGUGaagaacuGGCAcguCGCCGAGCG-Cg -3'
miRNA:   3'- -GCC-GCguCAC-------CCGUu--GCGGCUUGCaG- -5'
24959 3' -58.5 NC_005284.1 + 14599 0.72 0.241779
Target:  5'- uCGGCGCgaaAGUGuucCGGCGCCGAACGcUCg -3'
miRNA:   3'- -GCCGCG---UCACcc-GUUGCGGCUUGC-AG- -5'
24959 3' -58.5 NC_005284.1 + 16146 0.68 0.418926
Target:  5'- -cGCGCAGccgugGGGCAcauCGCUGAuggggcucggcGCGUCg -3'
miRNA:   3'- gcCGCGUCa----CCCGUu--GCGGCU-----------UGCAG- -5'
24959 3' -58.5 NC_005284.1 + 17391 0.67 0.496524
Target:  5'- uCGGUGUgaaGGUGcaacgcuacGGCGACGaCCGcGGCGUCa -3'
miRNA:   3'- -GCCGCG---UCAC---------CCGUUGC-GGC-UUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 17742 0.67 0.474495
Target:  5'- aGGCGCAGgcgcaccggcucGGGCGcugGCuGCUGcuGACGUCg -3'
miRNA:   3'- gCCGCGUCa-----------CCCGU---UG-CGGC--UUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 19228 0.67 0.496524
Target:  5'- uGGCGCAGUccu--ACGCCGAucugaacggacGCGUCg -3'
miRNA:   3'- gCCGCGUCAcccguUGCGGCU-----------UGCAG- -5'
24959 3' -58.5 NC_005284.1 + 21377 0.74 0.191556
Target:  5'- uCGGcCGCAGUGGGUGACuGCUGGcgGUCg -3'
miRNA:   3'- -GCC-GCGUCACCCGUUG-CGGCUugCAG- -5'
24959 3' -58.5 NC_005284.1 + 21831 0.68 0.444314
Target:  5'- cCGGCGCuuccagcgccgccgGcGUGGGCGAuggugcCGCCGccuaugcaGACGUCg -3'
miRNA:   3'- -GCCGCG--------------U-CACCCGUU------GCGGC--------UUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 22248 0.66 0.548169
Target:  5'- aGGUguucGCGGgcgGGGCGGCGCUGuACuUCa -3'
miRNA:   3'- gCCG----CGUCa--CCCGUUGCGGCuUGcAG- -5'
24959 3' -58.5 NC_005284.1 + 23603 0.66 0.558713
Target:  5'- uCGaCGCGGcGGGUuuugcucaugAGCGCCGAuauccgaccGCGUCa -3'
miRNA:   3'- -GCcGCGUCaCCCG----------UUGCGGCU---------UGCAG- -5'
24959 3' -58.5 NC_005284.1 + 24237 0.69 0.34915
Target:  5'- gCGGUGUGGUGGGauuuAC-CCGAuCGUCa -3'
miRNA:   3'- -GCCGCGUCACCCgu--UGcGGCUuGCAG- -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.