miRNA display CGI


Results 1 - 20 of 28 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
11425 3' -55.2 NC_003085.1 + 43045 0.66 0.686939
Target:  5'- -gUCGAGCGGCCCg-CUggGgaaCGGCUg -3'
miRNA:   3'- ugAGUUCGUCGGGaaGGaaCa--GCCGG- -5'
11425 3' -55.2 NC_003085.1 + 19259 0.66 0.683619
Target:  5'- cACUgCGAGguGCUCUUCCgagcgcucgacaGGCCg -3'
miRNA:   3'- -UGA-GUUCguCGGGAAGGaacag-------CCGG- -5'
11425 3' -55.2 NC_003085.1 + 38017 0.66 0.664731
Target:  5'- gGCggu-GCAGCCCcacUCCUUGcacgGGCCg -3'
miRNA:   3'- -UGaguuCGUCGGGa--AGGAACag--CCGG- -5'
11425 3' -55.2 NC_003085.1 + 18678 0.66 0.653574
Target:  5'- cGCUCA--CGGCUCUUCCggucgagGUCGcGCUg -3'
miRNA:   3'- -UGAGUucGUCGGGAAGGaa-----CAGC-CGG- -5'
11425 3' -55.2 NC_003085.1 + 37072 0.66 0.642397
Target:  5'- -gUCGAGCagcagcacccGGCCCUUCCagcgUUGuucUCGGCa -3'
miRNA:   3'- ugAGUUCG----------UCGGGAAGG----AAC---AGCCGg -5'
11425 3' -55.2 NC_003085.1 + 26250 0.67 0.631209
Target:  5'- uCUgGAGCAGCCCggccacugCCUucacaggguccUGgcccUCGGCCu -3'
miRNA:   3'- uGAgUUCGUCGGGaa------GGA-----------AC----AGCCGG- -5'
11425 3' -55.2 NC_003085.1 + 46367 0.67 0.620023
Target:  5'- cCUCAAGCcGCgCCUUCCgcgGgagCGGUUu -3'
miRNA:   3'- uGAGUUCGuCG-GGAAGGaa-Ca--GCCGG- -5'
11425 3' -55.2 NC_003085.1 + 9159 0.67 0.608848
Target:  5'- aGCUCGccgccgcGCAGUCCUgagUCUguggGUCGGCg -3'
miRNA:   3'- -UGAGUu------CGUCGGGAa--GGAa---CAGCCGg -5'
11425 3' -55.2 NC_003085.1 + 20103 0.67 0.597694
Target:  5'- uGC-CGGGCGGCCaugUCCUgGUugaagaCGGCCu -3'
miRNA:   3'- -UGaGUUCGUCGGga-AGGAaCA------GCCGG- -5'
11425 3' -55.2 NC_003085.1 + 30001 0.67 0.59324
Target:  5'- ---gGAGCGGCCCUgggcggCCUUGgcgacgucguccgCGGCUu -3'
miRNA:   3'- ugagUUCGUCGGGAa-----GGAACa------------GCCGG- -5'
11425 3' -55.2 NC_003085.1 + 19970 0.67 0.58657
Target:  5'- uGCUgGAGCAGuUCCUggCCaaGUaCGGCCc -3'
miRNA:   3'- -UGAgUUCGUC-GGGAa-GGaaCA-GCCGG- -5'
11425 3' -55.2 NC_003085.1 + 48197 0.67 0.58657
Target:  5'- ---gAGGUGGCCCa-CCUUGgauUCGGCCa -3'
miRNA:   3'- ugagUUCGUCGGGaaGGAAC---AGCCGG- -5'
11425 3' -55.2 NC_003085.1 + 27154 0.67 0.575485
Target:  5'- gGCgCGGGCAGCCUggcugaugaggUUCUUcUGUgCGGCCu -3'
miRNA:   3'- -UGaGUUCGUCGGG-----------AAGGA-ACA-GCCGG- -5'
11425 3' -55.2 NC_003085.1 + 49116 0.68 0.564448
Target:  5'- cGCUCAucccuuGCcGCCCUUCUUgg-CGGCg -3'
miRNA:   3'- -UGAGUu-----CGuCGGGAAGGAacaGCCGg -5'
11425 3' -55.2 NC_003085.1 + 27650 0.68 0.564448
Target:  5'- aGCUC-GGCGGCCUUgggcgccaacUCCUUGUCGa-- -3'
miRNA:   3'- -UGAGuUCGUCGGGA----------AGGAACAGCcgg -5'
11425 3' -55.2 NC_003085.1 + 13463 0.68 0.542553
Target:  5'- cGC-CAAGCugucgcggAGCgUUUCCUgggcGUCGGCCu -3'
miRNA:   3'- -UGaGUUCG--------UCGgGAAGGAa---CAGCCGG- -5'
11425 3' -55.2 NC_003085.1 + 32715 0.68 0.531709
Target:  5'- cGCUCGGGUAGCgacaacaaCCgUCCUUGcgucacUCGGCUu -3'
miRNA:   3'- -UGAGUUCGUCG--------GGaAGGAAC------AGCCGG- -5'
11425 3' -55.2 NC_003085.1 + 25443 0.69 0.499681
Target:  5'- cACUgAgcGGCGGCCggUUUCUgggugGUCGGCCg -3'
miRNA:   3'- -UGAgU--UCGUCGG--GAAGGaa---CAGCCGG- -5'
11425 3' -55.2 NC_003085.1 + 31472 0.69 0.499681
Target:  5'- cGCUCucGCAGCuCCgugCCcUG-CGGCCc -3'
miRNA:   3'- -UGAGuuCGUCG-GGaa-GGaACaGCCGG- -5'
11425 3' -55.2 NC_003085.1 + 9963 0.69 0.498628
Target:  5'- gGCUCccggaagAAGCGGCCagCUUCCgcUGaCGGCCu -3'
miRNA:   3'- -UGAG-------UUCGUCGG--GAAGGa-ACaGCCGG- -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.