miRNA display CGI


Results 1 - 20 of 130 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
28100 3' -59.7 NC_005887.1 + 36842 0.66 0.420866
Target:  5'- uGCGGCcgGUGCUGcGGcCGGUGCugcGGCCg -3'
miRNA:   3'- -CGCCG--CACGGC-UC-GUCGCGua-UCGGg -5'
28100 3' -59.7 NC_005887.1 + 33872 0.66 0.420866
Target:  5'- uGCGGCa-GCCGA-CAGCGCuccgucGCCg -3'
miRNA:   3'- -CGCCGcaCGGCUcGUCGCGuau---CGGg -5'
28100 3' -59.7 NC_005887.1 + 37908 0.66 0.420866
Target:  5'- aGCGGUGgGUCGuuuucaugccccAGCAggcGCGCGUuguugaaucAGCCCg -3'
miRNA:   3'- -CGCCGCaCGGC------------UCGU---CGCGUA---------UCGGG- -5'
28100 3' -59.7 NC_005887.1 + 2205 0.66 0.420866
Target:  5'- cGCGGCGaGCgCGGcgcGCAGCGC---GCaCCg -3'
miRNA:   3'- -CGCCGCaCG-GCU---CGUCGCGuauCG-GG- -5'
28100 3' -59.7 NC_005887.1 + 4942 0.66 0.420866
Target:  5'- cUGGCGUGCa-GGCAgucgcgaccGCGCAgcGCCa -3'
miRNA:   3'- cGCCGCACGgcUCGU---------CGCGUauCGGg -5'
28100 3' -59.7 NC_005887.1 + 11018 0.66 0.419928
Target:  5'- uGCGGCGgucugGUCGAGUguugggagaaccgGGCGCA-GGCg- -3'
miRNA:   3'- -CGCCGCa----CGGCUCG-------------UCGCGUaUCGgg -5'
28100 3' -59.7 NC_005887.1 + 34984 0.66 0.415258
Target:  5'- cGCGGCGuUGUCGucggucuGCAGCGCgaucgaauacguuucGUcGCCa -3'
miRNA:   3'- -CGCCGC-ACGGCu------CGUCGCG---------------UAuCGGg -5'
28100 3' -59.7 NC_005887.1 + 31398 0.66 0.411545
Target:  5'- aGCGguGCGUGCCGugguucAGCGGgGUAgGGCUg -3'
miRNA:   3'- -CGC--CGCACGGC------UCGUCgCGUaUCGGg -5'
28100 3' -59.7 NC_005887.1 + 12998 0.66 0.411545
Target:  5'- cGCGGC-UGCCGGGUucuccGCGUAccGCUa -3'
miRNA:   3'- -CGCCGcACGGCUCGu----CGCGUauCGGg -5'
28100 3' -59.7 NC_005887.1 + 33878 0.66 0.411545
Target:  5'- cGUGuCGUcGCCGAGCGguuGCGCcgGGCgCu -3'
miRNA:   3'- -CGCcGCA-CGGCUCGU---CGCGuaUCGgG- -5'
28100 3' -59.7 NC_005887.1 + 27754 0.66 0.409696
Target:  5'- aGUGGcCGaUGCCGAGC-GCGCcggcgagguagAGCgCCa -3'
miRNA:   3'- -CGCC-GC-ACGGCUCGuCGCGua---------UCG-GG- -5'
28100 3' -59.7 NC_005887.1 + 39457 0.66 0.401441
Target:  5'- cGCGGCG-GCCGAcguguccgucgucGCcuGCGCGUuauccaccGCCUg -3'
miRNA:   3'- -CGCCGCaCGGCU-------------CGu-CGCGUAu-------CGGG- -5'
28100 3' -59.7 NC_005887.1 + 1958 0.66 0.396901
Target:  5'- uCGGcCGUGCCGGGCAucacgauuuccucgcGCGCGacggcggcacGGCCg -3'
miRNA:   3'- cGCC-GCACGGCUCGU---------------CGCGUa---------UCGGg -5'
28100 3' -59.7 NC_005887.1 + 28222 0.66 0.393293
Target:  5'- uCGGCG-GUuuUGAGCAGCGCGcgcAGCUUc -3'
miRNA:   3'- cGCCGCaCG--GCUCGUCGCGUa--UCGGG- -5'
28100 3' -59.7 NC_005887.1 + 812 0.66 0.393293
Target:  5'- cGCGuGCGcGCCGAGCGccucGCGgAUcuuGCCg -3'
miRNA:   3'- -CGC-CGCaCGGCUCGU----CGCgUAu--CGGg -5'
28100 3' -59.7 NC_005887.1 + 23245 0.66 0.384366
Target:  5'- aGCGGCGgcgGUCGGcgcgcaaaaggcGCAGCuCGUggcgguugccgcAGCCCg -3'
miRNA:   3'- -CGCCGCa--CGGCU------------CGUCGcGUA------------UCGGG- -5'
28100 3' -59.7 NC_005887.1 + 3608 0.66 0.384366
Target:  5'- cGuuGCGccagGCCGcGCAGCGCuucGGCCg -3'
miRNA:   3'- -CgcCGCa---CGGCuCGUCGCGua-UCGGg -5'
28100 3' -59.7 NC_005887.1 + 25154 0.66 0.384366
Target:  5'- cGCGGCGcaacauUGCCGcguGCGGCcGCGUucGCgCg -3'
miRNA:   3'- -CGCCGC------ACGGCu--CGUCG-CGUAu-CGgG- -5'
28100 3' -59.7 NC_005887.1 + 28406 0.66 0.384366
Target:  5'- cGCGcaCGUcgcaGCCGAGCGcGCGCAggcGCUCg -3'
miRNA:   3'- -CGCc-GCA----CGGCUCGU-CGCGUau-CGGG- -5'
28100 3' -59.7 NC_005887.1 + 10632 0.66 0.384366
Target:  5'- cGCGGa--GCCuGGGCGGCGuCGUugGGCCa -3'
miRNA:   3'- -CGCCgcaCGG-CUCGUCGC-GUA--UCGGg -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.