miRNA display CGI


Results 1 - 20 of 22 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
23413 5' -56 NC_005259.1 + 59119 0.66 0.741752
Target:  5'- cGCGcGGCAUCGaGCagAGCGuCGAGCUc -3'
miRNA:   3'- -CGUcCCGUAGCcCGagUUGC-GCUUGA- -5'
23413 5' -56 NC_005259.1 + 54233 0.66 0.741752
Target:  5'- aUAGGGUcgguccuccuaaGUCGGGC---GCGUGAACg -3'
miRNA:   3'- cGUCCCG------------UAGCCCGaguUGCGCUUGa -5'
23413 5' -56 NC_005259.1 + 53023 0.66 0.731423
Target:  5'- uGCGGuGGCGUCGaGGCaUCGugaccuCGCGGGa- -3'
miRNA:   3'- -CGUC-CCGUAGC-CCG-AGUu-----GCGCUUga -5'
23413 5' -56 NC_005259.1 + 11239 0.66 0.731423
Target:  5'- --cGGGC-UCGGGCaUCGcgcgcaccACGUGGGCUu -3'
miRNA:   3'- cguCCCGuAGCCCG-AGU--------UGCGCUUGA- -5'
23413 5' -56 NC_005259.1 + 68101 0.66 0.720997
Target:  5'- cCGGGGUAacgacguaguUCGGGUcgagagCAGCgGCGAGCUc -3'
miRNA:   3'- cGUCCCGU----------AGCCCGa-----GUUG-CGCUUGA- -5'
23413 5' -56 NC_005259.1 + 67255 0.66 0.710487
Target:  5'- aGCGGGGCcUCGGGCagcCGuguCGCGucaAACc -3'
miRNA:   3'- -CGUCCCGuAGCCCGa--GUu--GCGC---UUGa -5'
23413 5' -56 NC_005259.1 + 62720 0.66 0.699902
Target:  5'- gGCGGGGgAUCucGCUCGAC-CGGACc -3'
miRNA:   3'- -CGUCCCgUAGccCGAGUUGcGCUUGa -5'
23413 5' -56 NC_005259.1 + 40803 0.68 0.635422
Target:  5'- cGUAGcGGuCAcccUCGGGgUCGACGCGcACg -3'
miRNA:   3'- -CGUC-CC-GU---AGCCCgAGUUGCGCuUGa -5'
23413 5' -56 NC_005259.1 + 60053 0.68 0.635422
Target:  5'- uCGGGGUcuucUCGGGCUCAgGCuCGGGCg -3'
miRNA:   3'- cGUCCCGu---AGCCCGAGU-UGcGCUUGa -5'
23413 5' -56 NC_005259.1 + 60759 0.68 0.613801
Target:  5'- uGCAGucGGCucggcgagGUUGGGCU--GCGCGAACa -3'
miRNA:   3'- -CGUC--CCG--------UAGCCCGAguUGCGCUUGa -5'
23413 5' -56 NC_005259.1 + 23296 0.68 0.592241
Target:  5'- gGUuGGGUAUCGGGgUCcGGCGCGGu-- -3'
miRNA:   3'- -CGuCCCGUAGCCCgAG-UUGCGCUuga -5'
23413 5' -56 NC_005259.1 + 51140 0.69 0.569744
Target:  5'- uCGGGGCGgccaugagcgcguUCGGGUUgacCGugGCGAGCc -3'
miRNA:   3'- cGUCCCGU-------------AGCCCGA---GUugCGCUUGa -5'
23413 5' -56 NC_005259.1 + 53678 0.69 0.528588
Target:  5'- cGC-GGGCAUCGcgauGGUgcgaccggUCAACGUGAACg -3'
miRNA:   3'- -CGuCCCGUAGC----CCG--------AGUUGCGCUUGa -5'
23413 5' -56 NC_005259.1 + 34898 0.7 0.504832
Target:  5'- gGCAggacGGGCcgcUCGGGCaUCAcacugcugccucggGCGCGAACg -3'
miRNA:   3'- -CGU----CCCGu--AGCCCG-AGU--------------UGCGCUUGa -5'
23413 5' -56 NC_005259.1 + 67424 0.7 0.487573
Target:  5'- uCGGGGUGcCGGGCUC-ACGCuuGAGCg -3'
miRNA:   3'- cGUCCCGUaGCCCGAGuUGCG--CUUGa -5'
23413 5' -56 NC_005259.1 + 19161 0.7 0.486566
Target:  5'- uCAGGGUcgagguucGUCGGcGCUCAACggugcccucgacaGCGAGCUc -3'
miRNA:   3'- cGUCCCG--------UAGCC-CGAGUUG-------------CGCUUGA- -5'
23413 5' -56 NC_005259.1 + 10345 0.7 0.477551
Target:  5'- uCGGcGGCAgCGGGCUCGACauCGGGCUc -3'
miRNA:   3'- cGUC-CCGUaGCCCGAGUUGc-GCUUGA- -5'
23413 5' -56 NC_005259.1 + 8645 0.71 0.410501
Target:  5'- gGC-GGGCAcgaggcuguggUCGGGCUgCcACGCGGGCa -3'
miRNA:   3'- -CGuCCCGU-----------AGCCCGA-GuUGCGCUUGa -5'
23413 5' -56 NC_005259.1 + 26836 0.72 0.383608
Target:  5'- cCGGGGCGgucugcUCGGGCagGAUGcCGAGCUg -3'
miRNA:   3'- cGUCCCGU------AGCCCGagUUGC-GCUUGA- -5'
23413 5' -56 NC_005259.1 + 21175 0.72 0.374907
Target:  5'- ---cGGCAgUCGGGUcaUCGGCGCGAGCa -3'
miRNA:   3'- cgucCCGU-AGCCCG--AGUUGCGCUUGa -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.