miRNA display CGI


Results 1 - 20 of 25 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
11344 3' -54.3 NC_003084.1 + 76266 0.66 0.904693
Target:  5'- cCGGUGguGucACCGACCUCcACGuugGUCg -3'
miRNA:   3'- -GCCACguC--UGGUUGGAGuUGCcg-UAG- -5'
11344 3' -54.3 NC_003084.1 + 16406 0.66 0.904044
Target:  5'- uGGUGUaaauguuGGACCGcACCUC---GGCAUCc -3'
miRNA:   3'- gCCACG-------UCUGGU-UGGAGuugCCGUAG- -5'
11344 3' -54.3 NC_003084.1 + 78664 0.66 0.898089
Target:  5'- uGGUGCAGGCUuuucgaaaAACCuUCAcuuAUGGUAUa -3'
miRNA:   3'- gCCACGUCUGG--------UUGG-AGU---UGCCGUAg -5'
11344 3' -54.3 NC_003084.1 + 69641 0.66 0.884135
Target:  5'- aCGGUGCAGGuCUuugaUCGGCGGUcgCg -3'
miRNA:   3'- -GCCACGUCU-GGuuggAGUUGCCGuaG- -5'
11344 3' -54.3 NC_003084.1 + 31825 0.67 0.876795
Target:  5'- gCGGUGguG-CCAACCgagucCGGCAa- -3'
miRNA:   3'- -GCCACguCuGGUUGGaguu-GCCGUag -5'
11344 3' -54.3 NC_003084.1 + 34409 0.67 0.876047
Target:  5'- uGGUGguGAUCGACCaCAgcuacguGCGGUuuAUCg -3'
miRNA:   3'- gCCACguCUGGUUGGaGU-------UGCCG--UAG- -5'
11344 3' -54.3 NC_003084.1 + 55350 0.67 0.853381
Target:  5'- uGGUGCAGuCCAccGCC-CggUGGUcUCa -3'
miRNA:   3'- gCCACGUCuGGU--UGGaGuuGCCGuAG- -5'
11344 3' -54.3 NC_003084.1 + 91206 0.67 0.845134
Target:  5'- aCGGUGCAGcuauCCAACC---ACGGCc-- -3'
miRNA:   3'- -GCCACGUCu---GGUUGGaguUGCCGuag -5'
11344 3' -54.3 NC_003084.1 + 81548 0.67 0.84262
Target:  5'- uGGUGCcacAGAUCGACCcugagggacguauaUCcgaagcugcgGACGGCGUCg -3'
miRNA:   3'- gCCACG---UCUGGUUGG--------------AG----------UUGCCGUAG- -5'
11344 3' -54.3 NC_003084.1 + 88219 0.67 0.836679
Target:  5'- uGGUG-AGACCAACCguguCGGC-UCu -3'
miRNA:   3'- gCCACgUCUGGUUGGaguuGCCGuAG- -5'
11344 3' -54.3 NC_003084.1 + 9959 0.67 0.836679
Target:  5'- gGGcGCuaaacagcuCCAucACCUUAGCGGCAUCa -3'
miRNA:   3'- gCCaCGucu------GGU--UGGAGUUGCCGUAG- -5'
11344 3' -54.3 NC_003084.1 + 12117 0.68 0.827146
Target:  5'- uGGUGCGGcCCGaaauggaACCUUcACGGCGc- -3'
miRNA:   3'- gCCACGUCuGGU-------UGGAGuUGCCGUag -5'
11344 3' -54.3 NC_003084.1 + 12603 0.68 0.819174
Target:  5'- uCGGUGCGGGaggUCGugC-CAGCaGCAUCg -3'
miRNA:   3'- -GCCACGUCU---GGUugGaGUUGcCGUAG- -5'
11344 3' -54.3 NC_003084.1 + 23149 0.68 0.819173
Target:  5'- uGGUGCAGcguuacgguuccGCgAGCUacaUCAaggGCGGCGUCa -3'
miRNA:   3'- gCCACGUC------------UGgUUGG---AGU---UGCCGUAG- -5'
11344 3' -54.3 NC_003084.1 + 24368 0.68 0.813776
Target:  5'- uGGUGgGGugCAccucACCccgaugauacaauuuUCGACGGUAUCg -3'
miRNA:   3'- gCCACgUCugGU----UGG---------------AGUUGCCGUAG- -5'
11344 3' -54.3 NC_003084.1 + 80043 0.69 0.761567
Target:  5'- aCGGUaGCuucaacuucuuucAGGgCGACCUCcuCGGCGUCa -3'
miRNA:   3'- -GCCA-CG-------------UCUgGUUGGAGuuGCCGUAG- -5'
11344 3' -54.3 NC_003084.1 + 102669 0.69 0.742575
Target:  5'- uCGGUGCAGcCCAACguuaagCUCAugACGaGCGUUg -3'
miRNA:   3'- -GCCACGUCuGGUUG------GAGU--UGC-CGUAG- -5'
11344 3' -54.3 NC_003084.1 + 53255 0.69 0.742574
Target:  5'- aGGUGCAGGgCAGCUcacgCAuaucACGGCuAUCg -3'
miRNA:   3'- gCCACGUCUgGUUGGa---GU----UGCCG-UAG- -5'
11344 3' -54.3 NC_003084.1 + 97510 0.7 0.711848
Target:  5'- -cGUGCAGGCCGGgCUCAACaGUuUCa -3'
miRNA:   3'- gcCACGUCUGGUUgGAGUUGcCGuAG- -5'
11344 3' -54.3 NC_003084.1 + 25988 0.71 0.64869
Target:  5'- gGGUGCAGcACCAGaCCUCGGCGu--UCg -3'
miRNA:   3'- gCCACGUC-UGGUU-GGAGUUGCcguAG- -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.