miRNA display CGI


Results 1 - 19 of 19 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
23827 5' -58.6 NC_005261.1 + 26406 0.66 0.778891
Target:  5'- cUCGCGCuCUCUCUCccccCUucUCUCCCUc -3'
miRNA:   3'- aGGCGCG-GGGAGAGu---GAu-AGAGGGAa -5'
23827 5' -58.6 NC_005261.1 + 94456 0.66 0.769543
Target:  5'- gUCCGCGucCCCCUC-CGCgucggcGUCgUCCCg- -3'
miRNA:   3'- -AGGCGC--GGGGAGaGUGa-----UAG-AGGGaa -5'
23827 5' -58.6 NC_005261.1 + 111809 0.66 0.750488
Target:  5'- cUCGCGUCggCCgagCUCGCgcuUCUCCCUg -3'
miRNA:   3'- aGGCGCGG--GGa--GAGUGau-AGAGGGAa -5'
23827 5' -58.6 NC_005261.1 + 6853 0.66 0.7408
Target:  5'- cCCcCGCCCCaUUCACg--CUCCCg- -3'
miRNA:   3'- aGGcGCGGGGaGAGUGauaGAGGGaa -5'
23827 5' -58.6 NC_005261.1 + 51591 0.66 0.730034
Target:  5'- gCCGUGCUCCUCcugaCGCUGUCUgagcucgUCCUg -3'
miRNA:   3'- aGGCGCGGGGAGa---GUGAUAGA-------GGGAa -5'
23827 5' -58.6 NC_005261.1 + 22325 0.67 0.721148
Target:  5'- cCCGCGCCCgCcCaCACUccCUCCCUc -3'
miRNA:   3'- aGGCGCGGG-GaGaGUGAuaGAGGGAa -5'
23827 5' -58.6 NC_005261.1 + 33205 0.67 0.720157
Target:  5'- cCCGCGCccuccccCCCUCUCcCUccccCUCCCUc -3'
miRNA:   3'- aGGCGCG-------GGGAGAGuGAua--GAGGGAa -5'
23827 5' -58.6 NC_005261.1 + 133112 0.67 0.711203
Target:  5'- aCCGCGCggCCUUC-CACggcgugcgcGUCUCCCUg -3'
miRNA:   3'- aGGCGCG--GGGAGaGUGa--------UAGAGGGAa -5'
23827 5' -58.6 NC_005261.1 + 58819 0.67 0.701191
Target:  5'- gCCGCGCCacguCCUCcaggcacccgCGCUggGUCUCCCg- -3'
miRNA:   3'- aGGCGCGG----GGAGa---------GUGA--UAGAGGGaa -5'
23827 5' -58.6 NC_005261.1 + 35075 0.68 0.650436
Target:  5'- cUCCGCGCCCC-CUCGCccUCggagCCg-- -3'
miRNA:   3'- -AGGCGCGGGGaGAGUGauAGa---GGgaa -5'
23827 5' -58.6 NC_005261.1 + 10516 0.68 0.650436
Target:  5'- gCCGCugcggGCCCCgcggcgcgCUCGCUGUCgccCCCg- -3'
miRNA:   3'- aGGCG-----CGGGGa-------GAGUGAUAGa--GGGaa -5'
23827 5' -58.6 NC_005261.1 + 120334 0.68 0.640207
Target:  5'- gCUGCGUCCC-CgagCGC-GUCUCCCUg -3'
miRNA:   3'- aGGCGCGGGGaGa--GUGaUAGAGGGAa -5'
23827 5' -58.6 NC_005261.1 + 50360 0.68 0.609514
Target:  5'- gCCGCGCCCgUCaUCACguagCUCCg-- -3'
miRNA:   3'- aGGCGCGGGgAG-AGUGaua-GAGGgaa -5'
23827 5' -58.6 NC_005261.1 + 100084 0.7 0.53881
Target:  5'- gCCGCGCCCCUCgccgccgcCGCUGcCgccgCCCa- -3'
miRNA:   3'- aGGCGCGGGGAGa-------GUGAUaGa---GGGaa -5'
23827 5' -58.6 NC_005261.1 + 28315 0.71 0.480532
Target:  5'- gCgGCGCCCgcgCUCUCGC--UCUCCCUc -3'
miRNA:   3'- aGgCGCGGG---GAGAGUGauAGAGGGAa -5'
23827 5' -58.6 NC_005261.1 + 78792 0.71 0.471112
Target:  5'- gCCGCagggGCuCCCUCUCACgg-CUCCCc- -3'
miRNA:   3'- aGGCG----CG-GGGAGAGUGauaGAGGGaa -5'
23827 5' -58.6 NC_005261.1 + 91565 0.72 0.425497
Target:  5'- gCCGUGCCCCUCaacaccgacUACUAcuUCUCCCa- -3'
miRNA:   3'- aGGCGCGGGGAGa--------GUGAU--AGAGGGaa -5'
23827 5' -58.6 NC_005261.1 + 22254 0.75 0.278682
Target:  5'- cUCCGCGCCCgCUC-CGCUucuuUUUCCCUc -3'
miRNA:   3'- -AGGCGCGGG-GAGaGUGAu---AGAGGGAa -5'
23827 5' -58.6 NC_005261.1 + 7386 1.05 0.002437
Target:  5'- uUCCGCGCCCCUCUCACUAUCUCCCUUc -3'
miRNA:   3'- -AGGCGCGGGGAGAGUGAUAGAGGGAA- -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.