miRNA display CGI


Results 1 - 20 of 71 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
6983 3' -53.7 NC_001875.2 + 99287 0.66 0.938967
Target:  5'- uGCUGcaGCCGCucCUcgGCGGcguuguauacgGGCUGCGCa -3'
miRNA:   3'- -CGAC--CGGCG--GAuaCGCUa----------UUGACGUG- -5'
6983 3' -53.7 NC_001875.2 + 6515 0.66 0.938967
Target:  5'- cGCUGGCCGCCguccacCGGUccucgucGCUGguCa -3'
miRNA:   3'- -CGACCGGCGGauac--GCUAu------UGACguG- -5'
6983 3' -53.7 NC_001875.2 + 59014 0.66 0.938473
Target:  5'- aGCUGGCCacugaaaacgagcGCCUGagggGCGA-AAUUGcCGCg -3'
miRNA:   3'- -CGACCGG-------------CGGAUa---CGCUaUUGAC-GUG- -5'
6983 3' -53.7 NC_001875.2 + 79080 0.66 0.933909
Target:  5'- uGUUGGCCGCgUugGCGu--AgUGCGCa -3'
miRNA:   3'- -CGACCGGCGgAuaCGCuauUgACGUG- -5'
6983 3' -53.7 NC_001875.2 + 125065 0.66 0.932341
Target:  5'- cGCUGaugcccugaaacacGCCGCgaAUGCGcgGcacaucguuGCUGCGCg -3'
miRNA:   3'- -CGAC--------------CGGCGgaUACGCuaU---------UGACGUG- -5'
6983 3' -53.7 NC_001875.2 + 32060 0.66 0.923019
Target:  5'- uGUUGGCCGCCgaca-GGUAGCccGCAa -3'
miRNA:   3'- -CGACCGGCGGauacgCUAUUGa-CGUg -5'
6983 3' -53.7 NC_001875.2 + 86922 0.66 0.923019
Target:  5'- cGCUGaagcGCCGCCUagaGUGCGAgggcgAGCcGCcaGCg -3'
miRNA:   3'- -CGAC----CGGCGGA---UACGCUa----UUGaCG--UG- -5'
6983 3' -53.7 NC_001875.2 + 36418 0.67 0.917188
Target:  5'- cGCUGGCCGgCgccGCGGUGucggGCUGgUGCu -3'
miRNA:   3'- -CGACCGGCgGauaCGCUAU----UGAC-GUG- -5'
6983 3' -53.7 NC_001875.2 + 66123 0.67 0.915991
Target:  5'- aGCUGGCCGUCgucGCGucgcacaaUGUACa -3'
miRNA:   3'- -CGACCGGCGGauaCGCuauug---ACGUG- -5'
6983 3' -53.7 NC_001875.2 + 73636 0.67 0.911101
Target:  5'- gGCUgcGGCgGCUgcUGCGGcGGCUGCGg -3'
miRNA:   3'- -CGA--CCGgCGGauACGCUaUUGACGUg -5'
6983 3' -53.7 NC_001875.2 + 84950 0.67 0.911101
Target:  5'- -gUGGCCGCgcccUUAUGCaAUAACgaGCGCg -3'
miRNA:   3'- cgACCGGCG----GAUACGcUAUUGa-CGUG- -5'
6983 3' -53.7 NC_001875.2 + 88286 0.67 0.911101
Target:  5'- cGCUGGCgGgCgacGCGGUGAUUGUccGCa -3'
miRNA:   3'- -CGACCGgCgGauaCGCUAUUGACG--UG- -5'
6983 3' -53.7 NC_001875.2 + 29267 0.67 0.911101
Target:  5'- cGC-GGCCGCCgaccGCGccGGCgggGCGCg -3'
miRNA:   3'- -CGaCCGGCGGaua-CGCuaUUGa--CGUG- -5'
6983 3' -53.7 NC_001875.2 + 41703 0.67 0.911101
Target:  5'- --gGGCCaggGCgUAUGCGcgGcGCUGCGCg -3'
miRNA:   3'- cgaCCGG---CGgAUACGCuaU-UGACGUG- -5'
6983 3' -53.7 NC_001875.2 + 75228 0.67 0.904758
Target:  5'- --gGGUCGCCUAacggcgacgGCGAUGGCgGCGg -3'
miRNA:   3'- cgaCCGGCGGAUa--------CGCUAUUGaCGUg -5'
6983 3' -53.7 NC_001875.2 + 75584 0.67 0.904758
Target:  5'- cGCUGGCgucgGCgUcgGCGAUGGCgucgGCGu -3'
miRNA:   3'- -CGACCGg---CGgAuaCGCUAUUGa---CGUg -5'
6983 3' -53.7 NC_001875.2 + 129535 0.67 0.904758
Target:  5'- aGCUGGCCGagCUGcGCGcgGccACgGCGCg -3'
miRNA:   3'- -CGACCGGCg-GAUaCGCuaU--UGaCGUG- -5'
6983 3' -53.7 NC_001875.2 + 74659 0.67 0.898163
Target:  5'- -aUGGCCGgggCUggGCGA--GCUGCGCu -3'
miRNA:   3'- cgACCGGCg--GAuaCGCUauUGACGUG- -5'
6983 3' -53.7 NC_001875.2 + 23753 0.67 0.898163
Target:  5'- -aUGGCCGUgaGUGCGGUGcagcccgcagaGC-GCACg -3'
miRNA:   3'- cgACCGGCGgaUACGCUAU-----------UGaCGUG- -5'
6983 3' -53.7 NC_001875.2 + 11101 0.67 0.898163
Target:  5'- --cGGCCGCCgucucgGCGccgcAGCUGCAa -3'
miRNA:   3'- cgaCCGGCGGaua---CGCua--UUGACGUg -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.