miRNA display CGI


Results 1 - 20 of 43 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
1636 3' -55.3 NC_001347.2 + 191848 0.66 0.98471
Target:  5'- cGGugGU---GCCuGUCGUCCucGUCuCCCc -3'
miRNA:   3'- -CCugCAgaaCGG-CAGCAGG--CAGuGGG- -5'
1636 3' -55.3 NC_001347.2 + 172574 0.66 0.984539
Target:  5'- cGGGCGUCUUcgcagcguucccgGUCGUCGUgUGU-GCUCu -3'
miRNA:   3'- -CCUGCAGAA-------------CGGCAGCAgGCAgUGGG- -5'
1636 3' -55.3 NC_001347.2 + 152157 0.66 0.982938
Target:  5'- aGGcUGUaacuaacgUGCUGUCGcCCGUCuuuCCCg -3'
miRNA:   3'- -CCuGCAga------ACGGCAGCaGGCAGu--GGG- -5'
1636 3' -55.3 NC_001347.2 + 852 0.66 0.982938
Target:  5'- uGGACGUCgga--GgUGUCCGgCGCCCa -3'
miRNA:   3'- -CCUGCAGaacggCaGCAGGCaGUGGG- -5'
1636 3' -55.3 NC_001347.2 + 104536 0.66 0.982752
Target:  5'- cGGGCGUgccuccugcaugCUgGCCGUCGaUCCGUacgacacggaggcCGCCa -3'
miRNA:   3'- -CCUGCA------------GAaCGGCAGC-AGGCA-------------GUGGg -5'
1636 3' -55.3 NC_001347.2 + 97652 0.66 0.981803
Target:  5'- cGGcACGUCguacagcucgucccUGCUGUCGUC-GUCucCCCg -3'
miRNA:   3'- -CC-UGCAGa-------------ACGGCAGCAGgCAGu-GGG- -5'
1636 3' -55.3 NC_001347.2 + 69611 0.66 0.981015
Target:  5'- cGcCGcagCaUGCCGUCccaGUCCGcCGCCCa -3'
miRNA:   3'- cCuGCa--GaACGGCAG---CAGGCaGUGGG- -5'
1636 3' -55.3 NC_001347.2 + 166620 0.66 0.981015
Target:  5'- --cCGUCacGCCGUCcUCCGagaggcgCGCCCg -3'
miRNA:   3'- ccuGCAGaaCGGCAGcAGGCa------GUGGG- -5'
1636 3' -55.3 NC_001347.2 + 76970 0.66 0.978935
Target:  5'- uGGAaGUCUUGCCGgCGcCCGccgUGCCg -3'
miRNA:   3'- -CCUgCAGAACGGCaGCaGGCa--GUGGg -5'
1636 3' -55.3 NC_001347.2 + 184443 0.66 0.978935
Target:  5'- uGACGgagCUcGUCGUCGUCCuccUCuCCCu -3'
miRNA:   3'- cCUGCa--GAaCGGCAGCAGGc--AGuGGG- -5'
1636 3' -55.3 NC_001347.2 + 158177 0.66 0.976691
Target:  5'- uGGACGcgcgcucgCUggugGCCGUgGUCUGUCGgCa -3'
miRNA:   3'- -CCUGCa-------GAa---CGGCAgCAGGCAGUgGg -5'
1636 3' -55.3 NC_001347.2 + 448 0.66 0.974275
Target:  5'- -cACGUCgcuuuuauucGCCGUCG-CCGUCcUCCg -3'
miRNA:   3'- ccUGCAGaa--------CGGCAGCaGGCAGuGGG- -5'
1636 3' -55.3 NC_001347.2 + 229927 0.66 0.974275
Target:  5'- -cACGUCgcuuuuauucGCCGUCG-CCGUCcUCCg -3'
miRNA:   3'- ccUGCAGaa--------CGGCAGCaGGCAGuGGG- -5'
1636 3' -55.3 NC_001347.2 + 24489 0.66 0.974275
Target:  5'- cGGGCuuucCUUGUcaCGUUGUCUGggCGCCCg -3'
miRNA:   3'- -CCUGca--GAACG--GCAGCAGGCa-GUGGG- -5'
1636 3' -55.3 NC_001347.2 + 165116 0.67 0.968908
Target:  5'- cGGugGUCguugucgcUGCCGU-GUCCG-CGCUUu -3'
miRNA:   3'- -CCugCAGa-------ACGGCAgCAGGCaGUGGG- -5'
1636 3' -55.3 NC_001347.2 + 210145 0.67 0.968908
Target:  5'- cGcCGUCUuucgUGCCGUCG-CCGcacugcguucUCACUCg -3'
miRNA:   3'- cCuGCAGA----ACGGCAGCaGGC----------AGUGGG- -5'
1636 3' -55.3 NC_001347.2 + 38658 0.67 0.968908
Target:  5'- cGGCGUCUgcagcgccaCCGUCGUgCCGgccCACCg -3'
miRNA:   3'- cCUGCAGAac-------GGCAGCA-GGCa--GUGGg -5'
1636 3' -55.3 NC_001347.2 + 161661 0.67 0.968908
Target:  5'- uGGACGc---GCCGUUGg-CGUCGCCUc -3'
miRNA:   3'- -CCUGCagaaCGGCAGCagGCAGUGGG- -5'
1636 3' -55.3 NC_001347.2 + 164678 0.67 0.965945
Target:  5'- aGGACGgc--GCCGUgG-CCGUUGCCg -3'
miRNA:   3'- -CCUGCagaaCGGCAgCaGGCAGUGGg -5'
1636 3' -55.3 NC_001347.2 + 166017 0.67 0.965945
Target:  5'- cGGACGUCgcgccUGCCGUUGauucUUCGUgAUCg -3'
miRNA:   3'- -CCUGCAGa----ACGGCAGC----AGGCAgUGGg -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.