miRNA display CGI


Results 1 - 20 of 80 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
23244 3' -61 NC_005259.1 + 42672 0.66 0.541733
Target:  5'- gGCUGcUgUUGGCgAUCUCGACC-CCg -3'
miRNA:   3'- gCGGCaGgGGCCGgUAGAGCUGGuGG- -5'
23244 3' -61 NC_005259.1 + 48472 0.66 0.541733
Target:  5'- gCGCCGggucgCgUCGGCCuguucCUCGACgCGCUu -3'
miRNA:   3'- -GCGGCa----GgGGCCGGua---GAGCUG-GUGG- -5'
23244 3' -61 NC_005259.1 + 30659 0.66 0.540733
Target:  5'- aGCCGcagcacaUCgCCCGGCgAguagCU-GGCCACCu -3'
miRNA:   3'- gCGGC-------AG-GGGCCGgUa---GAgCUGGUGG- -5'
23244 3' -61 NC_005259.1 + 13506 0.66 0.535744
Target:  5'- -cUCG-CCCCGGUCuGUCggucaccgagacugCGGCCACCa -3'
miRNA:   3'- gcGGCaGGGGCCGG-UAGa-------------GCUGGUGG- -5'
23244 3' -61 NC_005259.1 + 58169 0.66 0.531764
Target:  5'- gCGCaCGggaUCUCGacGCaCGUCUUGACCGCCg -3'
miRNA:   3'- -GCG-GCa--GGGGC--CG-GUAGAGCUGGUGG- -5'
23244 3' -61 NC_005259.1 + 45822 0.66 0.531764
Target:  5'- aGCCGgggaugaCCauGCCGUC-CGcACCACCg -3'
miRNA:   3'- gCGGCag-----GGgcCGGUAGaGC-UGGUGG- -5'
23244 3' -61 NC_005259.1 + 22444 0.66 0.531764
Target:  5'- gGCCaucgaCUCUGGCUAcCUCGugCGCCc -3'
miRNA:   3'- gCGGca---GGGGCCGGUaGAGCugGUGG- -5'
23244 3' -61 NC_005259.1 + 30617 0.66 0.521862
Target:  5'- uCGCCGUUUCUGGUgAUCgagUGAaugUCGCCg -3'
miRNA:   3'- -GCGGCAGGGGCCGgUAGa--GCU---GGUGG- -5'
23244 3' -61 NC_005259.1 + 60132 0.66 0.521862
Target:  5'- gGCCucGUCCUgcgCGGCC---UUGGCCGCCg -3'
miRNA:   3'- gCGG--CAGGG---GCCGGuagAGCUGGUGG- -5'
23244 3' -61 NC_005259.1 + 37257 0.66 0.521862
Target:  5'- cCGCCGUUgCCaGGCUuga--GGCCGCCc -3'
miRNA:   3'- -GCGGCAGgGG-CCGGuagagCUGGUGG- -5'
23244 3' -61 NC_005259.1 + 61918 0.66 0.515956
Target:  5'- gGUCGUCgUCGGCagcucgGUCUCucgcgcgggugccggGGCCACCg -3'
miRNA:   3'- gCGGCAGgGGCCGg-----UAGAG---------------CUGGUGG- -5'
23244 3' -61 NC_005259.1 + 9714 0.66 0.512033
Target:  5'- -aCCGUCCUCgGGCCGg-UCGAgcUCGCCg -3'
miRNA:   3'- gcGGCAGGGG-CCGGUagAGCU--GGUGG- -5'
23244 3' -61 NC_005259.1 + 3296 0.66 0.512033
Target:  5'- uCGCCgGUCCCuCGGCgagcgcugCGUCgacgUGAgCGCCg -3'
miRNA:   3'- -GCGG-CAGGG-GCCG--------GUAGa---GCUgGUGG- -5'
23244 3' -61 NC_005259.1 + 17243 0.66 0.506172
Target:  5'- aGCCgGUCUcacgCUGGCCAccucagacaaggcagUgCUCGACCGCUa -3'
miRNA:   3'- gCGG-CAGG----GGCCGGU---------------A-GAGCUGGUGG- -5'
23244 3' -61 NC_005259.1 + 60278 0.66 0.502281
Target:  5'- gCGCUG-CCgggCGGCCAUCgucgucggugCGGCCACg -3'
miRNA:   3'- -GCGGCaGGg--GCCGGUAGa---------GCUGGUGg -5'
23244 3' -61 NC_005259.1 + 5087 0.66 0.502281
Target:  5'- gGCCGgugUCaCCGGCgAUCUgcguaGACCGCg -3'
miRNA:   3'- gCGGCa--GG-GGCCGgUAGAg----CUGGUGg -5'
23244 3' -61 NC_005259.1 + 19267 0.66 0.502281
Target:  5'- gGCCG-CCCgaUGGaaGUCaUGACCACCa -3'
miRNA:   3'- gCGGCaGGG--GCCggUAGaGCUGGUGG- -5'
23244 3' -61 NC_005259.1 + 56717 0.66 0.502281
Target:  5'- uGgUGUCCCCGaGCgCGUCgaCGuauCCGCCa -3'
miRNA:   3'- gCgGCAGGGGC-CG-GUAGa-GCu--GGUGG- -5'
23244 3' -61 NC_005259.1 + 9590 0.66 0.492611
Target:  5'- aCGUCGUCggUCUGGCCGUa--GAgCACCg -3'
miRNA:   3'- -GCGGCAG--GGGCCGGUAgagCUgGUGG- -5'
23244 3' -61 NC_005259.1 + 57978 0.66 0.492611
Target:  5'- uCGCCGggaucgugaCCCCGGUCGagccagCGACCAUg -3'
miRNA:   3'- -GCGGCa--------GGGGCCGGUaga---GCUGGUGg -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.