miRNA display CGI


Results 1 - 20 of 38 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
28093 5' -52.3 NC_005887.1 + 3347 1.13 0.000705
Target:  5'- cGACUGCGCGGUGGCACGAAACAAUCCg -3'
miRNA:   3'- -CUGACGCGCCACCGUGCUUUGUUAGG- -5'
28093 5' -52.3 NC_005887.1 + 10756 0.79 0.174304
Target:  5'- gGACUgGCGCGGcgGGUACGAGggGCAGUCg -3'
miRNA:   3'- -CUGA-CGCGCCa-CCGUGCUU--UGUUAGg -5'
28093 5' -52.3 NC_005887.1 + 40174 0.73 0.385754
Target:  5'- aGCUGCGCGacGGCACGAAGgGAaucgCCg -3'
miRNA:   3'- cUGACGCGCcaCCGUGCUUUgUUa---GG- -5'
28093 5' -52.3 NC_005887.1 + 22258 0.73 0.424198
Target:  5'- ---aGCGaCGGUGGCGCGcagcAGGCGAUCg -3'
miRNA:   3'- cugaCGC-GCCACCGUGC----UUUGUUAGg -5'
28093 5' -52.3 NC_005887.1 + 28323 0.72 0.464842
Target:  5'- aGGCUGCGcCGGcGGCGCGccGGCGGUUg -3'
miRNA:   3'- -CUGACGC-GCCaCCGUGCu-UUGUUAGg -5'
28093 5' -52.3 NC_005887.1 + 38106 0.71 0.485911
Target:  5'- aGACUGCGUGcggccgagcGUcGGCGCGAgcAGCAcgCCu -3'
miRNA:   3'- -CUGACGCGC---------CA-CCGUGCU--UUGUuaGG- -5'
28093 5' -52.3 NC_005887.1 + 32248 0.71 0.507422
Target:  5'- -cCUGcCGCGGagaaagguUGGCACGGGcAUGAUCCg -3'
miRNA:   3'- cuGAC-GCGCC--------ACCGUGCUU-UGUUAGG- -5'
28093 5' -52.3 NC_005887.1 + 6812 0.7 0.574092
Target:  5'- cGCUGCGCGacuggcgcuacGUGGCGCGGGucuGCAacAUCg -3'
miRNA:   3'- cUGACGCGC-----------CACCGUGCUU---UGU--UAGg -5'
28093 5' -52.3 NC_005887.1 + 41697 0.7 0.582026
Target:  5'- aGCUGCGCGaGgGGCucaucaaggcgaugACGGgcGGCGAUCCg -3'
miRNA:   3'- cUGACGCGC-CaCCG--------------UGCU--UUGUUAGG- -5'
28093 5' -52.3 NC_005887.1 + 32464 0.7 0.585434
Target:  5'- cACUGCGCGGc-GUGCGGAuCGAUCUc -3'
miRNA:   3'- cUGACGCGCCacCGUGCUUuGUUAGG- -5'
28093 5' -52.3 NC_005887.1 + 28581 0.69 0.596818
Target:  5'- cGCUGCGCGGacgcGGUcgACGAgguagguuucGACAGUCUu -3'
miRNA:   3'- cUGACGCGCCa---CCG--UGCU----------UUGUUAGG- -5'
28093 5' -52.3 NC_005887.1 + 23125 0.69 0.619673
Target:  5'- uGGCUG-GCGGUgaGGUgacgGCGuGACGAUCCu -3'
miRNA:   3'- -CUGACgCGCCA--CCG----UGCuUUGUUAGG- -5'
28093 5' -52.3 NC_005887.1 + 33546 0.69 0.631123
Target:  5'- -cCUGCuucUGGUcgGGUGCGAGGCGAUCCc -3'
miRNA:   3'- cuGACGc--GCCA--CCGUGCUUUGUUAGG- -5'
28093 5' -52.3 NC_005887.1 + 38746 0.69 0.642575
Target:  5'- cGCUGCGCGGccUGGCGC--AACGugagcUCCc -3'
miRNA:   3'- cUGACGCGCC--ACCGUGcuUUGUu----AGG- -5'
28093 5' -52.3 NC_005887.1 + 37403 0.69 0.642575
Target:  5'- cGCUGCGCGGU--CGCGAcugccuGCAcgCCa -3'
miRNA:   3'- cUGACGCGCCAccGUGCUu-----UGUuaGG- -5'
28093 5' -52.3 NC_005887.1 + 23693 0.69 0.650585
Target:  5'- aGACUGCGCGcagcGGCugGAAcagcgucgacagcaGCGggCCg -3'
miRNA:   3'- -CUGACGCGCca--CCGugCUU--------------UGUuaGG- -5'
28093 5' -52.3 NC_005887.1 + 22975 0.68 0.676821
Target:  5'- aGCUGCGCGaGcaUGGCGCGuuGCcgcuGAUCg -3'
miRNA:   3'- cUGACGCGC-C--ACCGUGCuuUG----UUAGg -5'
28093 5' -52.3 NC_005887.1 + 15269 0.68 0.685897
Target:  5'- uGCUGCGCGGcgagcguccgccGGCgaACGAGACug-CCg -3'
miRNA:   3'- cUGACGCGCCa-----------CCG--UGCUUUGuuaGG- -5'
28093 5' -52.3 NC_005887.1 + 34388 0.68 0.688161
Target:  5'- ---aGUGCGGccgGGCGCGAGGCccggCCu -3'
miRNA:   3'- cugaCGCGCCa--CCGUGCUUUGuua-GG- -5'
28093 5' -52.3 NC_005887.1 + 24109 0.68 0.710653
Target:  5'- uGACgGUGCccggcGUGGC-CGAGGCGAUCa -3'
miRNA:   3'- -CUGaCGCGc----CACCGuGCUUUGUUAGg -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.