miRNA display CGI


Results 1 - 18 of 18 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
11962 3' -62.4 NC_003278.1 + 9528 0.66 0.252129
Target:  5'- cGGCCUGGg-CCAGgCGGGCcuGCGcCAGg -3'
miRNA:   3'- -CCGGGCCagGGUCgGCCCG--UGUaGUU- -5'
11962 3' -62.4 NC_003278.1 + 28406 0.66 0.251484
Target:  5'- aGGCCCGcUUCaAGCCGGGCgacagcccgcgcgGCGUCu- -3'
miRNA:   3'- -CCGGGCcAGGgUCGGCCCG-------------UGUAGuu -5'
11962 3' -62.4 NC_003278.1 + 13693 0.67 0.219767
Target:  5'- uGCCCGGUCgCCcuucugccguaccuGGCCuGGGCGuucucCGUCGAu -3'
miRNA:   3'- cCGGGCCAG-GG--------------UCGG-CCCGU-----GUAGUU- -5'
11962 3' -62.4 NC_003278.1 + 18309 0.67 0.215768
Target:  5'- cGGCCCGGUCaaGGCCGaccuaGGCu--UCGAc -3'
miRNA:   3'- -CCGGGCCAGggUCGGC-----CCGuguAGUU- -5'
11962 3' -62.4 NC_003278.1 + 7028 0.67 0.210164
Target:  5'- cGGCCCcGagCCGGCgGGGCGCGg--- -3'
miRNA:   3'- -CCGGGcCagGGUCGgCCCGUGUaguu -5'
11962 3' -62.4 NC_003278.1 + 4069 0.67 0.210164
Target:  5'- cGGCCCGGUCCCAuccGUCGcGGUcCuUCc- -3'
miRNA:   3'- -CCGGGCCAGGGU---CGGC-CCGuGuAGuu -5'
11962 3' -62.4 NC_003278.1 + 18589 0.67 0.194098
Target:  5'- uGCUCGGUgUCuucGCCGGGCuggGCGUCAc -3'
miRNA:   3'- cCGGGCCAgGGu--CGGCCCG---UGUAGUu -5'
11962 3' -62.4 NC_003278.1 + 31624 0.67 0.193582
Target:  5'- cGGCCUGGgcggcggcgCCgCAGgcuucaaCCGGGCGCGUCc- -3'
miRNA:   3'- -CCGGGCCa--------GG-GUC-------GGCCCGUGUAGuu -5'
11962 3' -62.4 NC_003278.1 + 9853 0.68 0.188987
Target:  5'- cGGCCUGGcCUgGGCCGaGuGCGCcgCGAa -3'
miRNA:   3'- -CCGGGCCaGGgUCGGC-C-CGUGuaGUU- -5'
11962 3' -62.4 NC_003278.1 + 22004 0.68 0.179118
Target:  5'- cGCaUCGGUgCCCAGCCGGcGCGCcaguucGUCGGu -3'
miRNA:   3'- cCG-GGCCA-GGGUCGGCC-CGUG------UAGUU- -5'
11962 3' -62.4 NC_003278.1 + 12973 0.68 0.165173
Target:  5'- aGGCCUGGUCauCCAGCCuGGagaucCGUCGAa -3'
miRNA:   3'- -CCGGGCCAG--GGUCGGcCCgu---GUAGUU- -5'
11962 3' -62.4 NC_003278.1 + 32780 0.69 0.143694
Target:  5'- uGGCCgcgaucaCGGUgCCGGCUGGGC-CGUCc- -3'
miRNA:   3'- -CCGG-------GCCAgGGUCGGCCCGuGUAGuu -5'
11962 3' -62.4 NC_003278.1 + 21933 0.7 0.136366
Target:  5'- -uCCCGGUCCugCAGgCGGGCGCG-CAGg -3'
miRNA:   3'- ccGGGCCAGG--GUCgGCCCGUGUaGUU- -5'
11962 3' -62.4 NC_003278.1 + 21318 0.7 0.129024
Target:  5'- cGGCCUGcUCgCCGGCUuaGGGCAgAUCAAg -3'
miRNA:   3'- -CCGGGCcAG-GGUCGG--CCCGUgUAGUU- -5'
11962 3' -62.4 NC_003278.1 + 17348 0.7 0.115426
Target:  5'- gGGCCUGGauaCCCAGCCGGucgcuaccGCAC-UCAu -3'
miRNA:   3'- -CCGGGCCa--GGGUCGGCC--------CGUGuAGUu -5'
11962 3' -62.4 NC_003278.1 + 21522 0.71 0.112242
Target:  5'- aGGCCUGGUC--AGCgCGGGC-CGUCAGg -3'
miRNA:   3'- -CCGGGCCAGggUCG-GCCCGuGUAGUU- -5'
11962 3' -62.4 NC_003278.1 + 31800 0.71 0.100309
Target:  5'- uGCCCGGgacaCCGGCCaGGCGC-UCGAa -3'
miRNA:   3'- cCGGGCCag--GGUCGGcCCGUGuAGUU- -5'
11962 3' -62.4 NC_003278.1 + 7082 1.07 0.000135
Target:  5'- cGGCCCGGUCCCAGCCGGGCACAUCAAc -3'
miRNA:   3'- -CCGGGCCAGGGUCGGCCCGUGUAGUU- -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.