miRNA display CGI


Results 1 - 16 of 16 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
11399 3' -53.4 NC_003084.1 + 20995 0.66 0.943754
Target:  5'- aUCGaguaCACCAUCGUCaaGGUGCCGUa-- -3'
miRNA:   3'- cGGCg---GUGGUGGUAG--CCAUGGUAaac -5'
11399 3' -53.4 NC_003084.1 + 61152 0.66 0.943754
Target:  5'- -aCGCCACCGC--UCGGUGcacCCAacUUUGa -3'
miRNA:   3'- cgGCGGUGGUGguAGCCAU---GGU--AAAC- -5'
11399 3' -53.4 NC_003084.1 + 27625 0.66 0.933881
Target:  5'- -gCGuCCAacuCCACCAaCGGUGCCAa--- -3'
miRNA:   3'- cgGC-GGU---GGUGGUaGCCAUGGUaaac -5'
11399 3' -53.4 NC_003084.1 + 21208 0.66 0.933881
Target:  5'- uGUCGUCugCACUuUCGGUGCgCAc--- -3'
miRNA:   3'- -CGGCGGugGUGGuAGCCAUG-GUaaac -5'
11399 3' -53.4 NC_003084.1 + 91093 0.66 0.933881
Target:  5'- gGgCGCCaggGCCACaCGUUGGUGuCCGUgcUUGg -3'
miRNA:   3'- -CgGCGG---UGGUG-GUAGCCAU-GGUA--AAC- -5'
11399 3' -53.4 NC_003084.1 + 48470 0.66 0.922979
Target:  5'- cGCCcUCACgUACCGUCGGUAgCGUg-- -3'
miRNA:   3'- -CGGcGGUG-GUGGUAGCCAUgGUAaac -5'
11399 3' -53.4 NC_003084.1 + 49587 0.67 0.884136
Target:  5'- aGCuCGgCACCACCcgcucgUGGUACgAUUUGu -3'
miRNA:   3'- -CG-GCgGUGGUGGua----GCCAUGgUAAAC- -5'
11399 3' -53.4 NC_003084.1 + 6567 0.68 0.869218
Target:  5'- cGCCGCCACgACCcacggcucGUUGGUgAUCGggUGg -3'
miRNA:   3'- -CGGCGGUGgUGG--------UAGCCA-UGGUaaAC- -5'
11399 3' -53.4 NC_003084.1 + 25466 0.69 0.828023
Target:  5'- cCCGCCACCgugucgggcAUCGUCGGUaggGCCGa--- -3'
miRNA:   3'- cGGCGGUGG---------UGGUAGCCA---UGGUaaac -5'
11399 3' -53.4 NC_003084.1 + 43480 0.69 0.800934
Target:  5'- aCCGCCGCCACCAaguGUACCc---- -3'
miRNA:   3'- cGGCGGUGGUGGUagcCAUGGuaaac -5'
11399 3' -53.4 NC_003084.1 + 17680 0.7 0.78872
Target:  5'- cGCCGucugcuucucauuaCCACCgACCGUCGGUGCaCGa--- -3'
miRNA:   3'- -CGGC--------------GGUGG-UGGUAGCCAUG-GUaaac -5'
11399 3' -53.4 NC_003084.1 + 100987 0.72 0.680463
Target:  5'- cGCCGCCACCACCAcagcCGaaGCCGc--- -3'
miRNA:   3'- -CGGCGGUGGUGGUa---GCcaUGGUaaac -5'
11399 3' -53.4 NC_003084.1 + 30559 0.73 0.606167
Target:  5'- gGgCGCUGCCGCCAUCGG--CCAUUg- -3'
miRNA:   3'- -CgGCGGUGGUGGUAGCCauGGUAAac -5'
11399 3' -53.4 NC_003084.1 + 5807 0.75 0.502341
Target:  5'- uGCCGCU-CCAUCAUgCGGUcCCAUUUGu -3'
miRNA:   3'- -CGGCGGuGGUGGUA-GCCAuGGUAAAC- -5'
11399 3' -53.4 NC_003084.1 + 62051 0.77 0.380712
Target:  5'- cGCCGCCACCACCAccgUUGcUACCAc--- -3'
miRNA:   3'- -CGGCGGUGGUGGU---AGCcAUGGUaaac -5'
11399 3' -53.4 NC_003084.1 + 96443 1.1 0.002949
Target:  5'- cGCCGCCACCACCAUCGGUACCAUUUGc -3'
miRNA:   3'- -CGGCGGUGGUGGUAGCCAUGGUAAAC- -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.