miRNA display CGI


Results 1 - 20 of 27 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
22295 3' -56.7 NC_005045.1 + 34788 0.66 0.560763
Target:  5'- gGCCUGCUuacCUGCGU-GCAGgaagcgauccaugaaGGUGUCc -3'
miRNA:   3'- -CGGACGAu--GACGUAgCGUCa--------------CCGCGG- -5'
22295 3' -56.7 NC_005045.1 + 4496 0.66 0.537822
Target:  5'- aCCgUGCUGC-GCAaCGacgGGUGGCGCa -3'
miRNA:   3'- cGG-ACGAUGaCGUaGCg--UCACCGCGg -5'
22295 3' -56.7 NC_005045.1 + 14876 0.66 0.537822
Target:  5'- cCCUGCUguaccgGCUGUccCGCAGgcaGUGCCu -3'
miRNA:   3'- cGGACGA------UGACGuaGCGUCac-CGCGG- -5'
22295 3' -56.7 NC_005045.1 + 35520 0.66 0.537822
Target:  5'- cCCUGCggcgccGCUGacgaUAUCGcCGGUGGCGgCu -3'
miRNA:   3'- cGGACGa-----UGAC----GUAGC-GUCACCGCgG- -5'
22295 3' -56.7 NC_005045.1 + 33069 0.66 0.537822
Target:  5'- cGCCUGC-GCUaCAgCGaCGGUGG-GCCg -3'
miRNA:   3'- -CGGACGaUGAcGUaGC-GUCACCgCGG- -5'
22295 3' -56.7 NC_005045.1 + 28463 0.66 0.523782
Target:  5'- gGCCgcuaGCUACcGCAagcaagccguggccUCGCAgGUGGagGCCa -3'
miRNA:   3'- -CGGa---CGAUGaCGU--------------AGCGU-CACCg-CGG- -5'
22295 3' -56.7 NC_005045.1 + 37297 0.66 0.515212
Target:  5'- aGCCUGUgGCUgaguuugGCAcUCGCGgcagucugucGUGGCGCg -3'
miRNA:   3'- -CGGACGaUGA-------CGU-AGCGU----------CACCGCGg -5'
22295 3' -56.7 NC_005045.1 + 41716 0.67 0.505639
Target:  5'- aGCCcGCcGgUGCGguguacacgaccUCGguGaUGGCGCCg -3'
miRNA:   3'- -CGGaCGaUgACGU------------AGCguC-ACCGCGG- -5'
22295 3' -56.7 NC_005045.1 + 38462 0.67 0.495094
Target:  5'- cGCCUGCgcCUGCcgcaucuccUCGCGGaGGCGgUCg -3'
miRNA:   3'- -CGGACGauGACGu--------AGCGUCaCCGC-GG- -5'
22295 3' -56.7 NC_005045.1 + 14944 0.67 0.484649
Target:  5'- uGCCUGCgggacagccggUACaGCAggggCgGCAGUcGCGCCa -3'
miRNA:   3'- -CGGACG-----------AUGaCGUa---G-CGUCAcCGCGG- -5'
22295 3' -56.7 NC_005045.1 + 9614 0.67 0.467141
Target:  5'- aGCCUGaUACUGCGUCaugccguacagggGaUguccacguccuuuggAGUGGCGCCa -3'
miRNA:   3'- -CGGACgAUGACGUAG-------------C-G---------------UCACCGCGG- -5'
22295 3' -56.7 NC_005045.1 + 4147 0.67 0.464085
Target:  5'- ---cGCcACUGCGaUGCAGUagcaGGCGCCu -3'
miRNA:   3'- cggaCGaUGACGUaGCGUCA----CCGCGG- -5'
22295 3' -56.7 NC_005045.1 + 28142 0.67 0.453975
Target:  5'- aGCCU-CUGgUGgAUagCGCuGUGGUGCCg -3'
miRNA:   3'- -CGGAcGAUgACgUA--GCGuCACCGCGG- -5'
22295 3' -56.7 NC_005045.1 + 2207 0.68 0.41478
Target:  5'- cGCCUGUUcaGCcuUGCGgaagaucggGCAGUcGGCGCCu -3'
miRNA:   3'- -CGGACGA--UG--ACGUag-------CGUCA-CCGCGG- -5'
22295 3' -56.7 NC_005045.1 + 667 0.68 0.395978
Target:  5'- cGCCUGCUcggucgcacCUGCggCGCuGaUGGaCGCCu -3'
miRNA:   3'- -CGGACGAu--------GACGuaGCGuC-ACC-GCGG- -5'
22295 3' -56.7 NC_005045.1 + 23306 0.69 0.349742
Target:  5'- aGCCUGCUGCUggaucaccggguucgGCAucaccugcacaugguUCGgGGUcGGCGCg -3'
miRNA:   3'- -CGGACGAUGA---------------CGU---------------AGCgUCA-CCGCGg -5'
22295 3' -56.7 NC_005045.1 + 5073 0.7 0.335483
Target:  5'- aGCCUGg-GCUGCcgacgacuggacggCGCGGaUGGCGCUg -3'
miRNA:   3'- -CGGACgaUGACGua------------GCGUC-ACCGCGG- -5'
22295 3' -56.7 NC_005045.1 + 2847 0.7 0.334658
Target:  5'- gGCggGCcGCUGCAaCGCAGccgacaUGGCGCUg -3'
miRNA:   3'- -CGgaCGaUGACGUaGCGUC------ACCGCGG- -5'
22295 3' -56.7 NC_005045.1 + 31191 0.71 0.287859
Target:  5'- cGCCUGagcaaGCcgCGCAGUGGUucGCCg -3'
miRNA:   3'- -CGGACgaugaCGuaGCGUCACCG--CGG- -5'
22295 3' -56.7 NC_005045.1 + 41572 0.71 0.263704
Target:  5'- cGCCgcccagggcagugGCUGCUGCgAUCacaGCGGUGGCcuugGCCu -3'
miRNA:   3'- -CGGa------------CGAUGACG-UAG---CGUCACCG----CGG- -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.