miRNA display CGI


Results 1 - 20 of 55 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
13997 3' -52.3 NC_003521.1 + 164801 0.66 0.994171
Target:  5'- uCGUcGGGGACGaucccggagcgcCCgcggGGGAGGAGGAa -3'
miRNA:   3'- uGCAaCCUCUGU------------GGa---CCUUUCUCCUg -5'
13997 3' -52.3 NC_003521.1 + 77666 0.68 0.983731
Target:  5'- cCGUcgGGAGACAgCaGGccGGGGGGCa -3'
miRNA:   3'- uGCAa-CCUCUGUgGaCCuuUCUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 7148 0.67 0.985515
Target:  5'- cGCGgaGGAcGACgACgaGGAA-GAGGACa -3'
miRNA:   3'- -UGCaaCCU-CUG-UGgaCCUUuCUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 173332 0.67 0.985515
Target:  5'- gACGaggucgGGAGugAcggaCCUcucgGGAAGGAGGACg -3'
miRNA:   3'- -UGCaa----CCUCugU----GGA----CCUUUCUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 91317 0.67 0.989589
Target:  5'- uGCGUgugcgcgcGGGGGCACgcgcaggcgaggugCUGGucGGGAGGACg -3'
miRNA:   3'- -UGCAa-------CCUCUGUG--------------GACCu-UUCUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 235842 0.67 0.98998
Target:  5'- cGCGggaUGGugaGGACACCacacggGGAGGGAGG-Ca -3'
miRNA:   3'- -UGCa--ACC---UCUGUGGa-----CCUUUCUCCuG- -5'
13997 3' -52.3 NC_003521.1 + 111200 0.67 0.9912
Target:  5'- gACGgUGGGcugggcgauGGCGCC-GGAAAGuGGGCg -3'
miRNA:   3'- -UGCaACCU---------CUGUGGaCCUUUCuCCUG- -5'
13997 3' -52.3 NC_003521.1 + 59646 0.66 0.993003
Target:  5'- gGCGUUGGuGcggcagacgcuggcGCGCCUGG-AGGAGcucaGACg -3'
miRNA:   3'- -UGCAACCuC--------------UGUGGACCuUUCUC----CUG- -5'
13997 3' -52.3 NC_003521.1 + 108102 0.66 0.994171
Target:  5'- aGCGcUUGGGGA-ACUUGGGcauGGGGGCu -3'
miRNA:   3'- -UGC-AACCUCUgUGGACCUuu-CUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 65225 0.68 0.983731
Target:  5'- gACGcaGGAGAUacuggccgGCCUGGAuccgcgcgcgcAAGAGGAa -3'
miRNA:   3'- -UGCaaCCUCUG--------UGGACCU-----------UUCUCCUg -5'
13997 3' -52.3 NC_003521.1 + 86550 0.68 0.977376
Target:  5'- aGCGUUGGAGcAgACCuucugccagaacUGGAGGcAGGGCa -3'
miRNA:   3'- -UGCAACCUC-UgUGG------------ACCUUUcUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 4233 0.68 0.974898
Target:  5'- cCGggaGGAGG-ACCgagacgGGGAGGAGGACg -3'
miRNA:   3'- uGCaa-CCUCUgUGGa-----CCUUUCUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 72410 0.79 0.549743
Target:  5'- aGCGgcGGAGGCACUgaGGAAGAGGGCg -3'
miRNA:   3'- -UGCaaCCUCUGUGGacCUUUCUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 28059 0.78 0.590104
Target:  5'- gGCGggGGAGAgACaggaGGggGGAGGACg -3'
miRNA:   3'- -UGCaaCCUCUgUGga--CCuuUCUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 17861 0.73 0.840896
Target:  5'- aGCGUgUGGAGAaggcaGCCaaggGGGGAGAGGAa -3'
miRNA:   3'- -UGCA-ACCUCUg----UGGa---CCUUUCUCCUg -5'
13997 3' -52.3 NC_003521.1 + 32923 0.71 0.917604
Target:  5'- gGCGUaGGuGGCGCC-GGAGAGcccaAGGGCg -3'
miRNA:   3'- -UGCAaCCuCUGUGGaCCUUUC----UCCUG- -5'
13997 3' -52.3 NC_003521.1 + 169213 0.69 0.955771
Target:  5'- gACGgaGGAGACAacaauCCcaGAAAGAGGACc -3'
miRNA:   3'- -UGCaaCCUCUGU-----GGacCUUUCUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 169170 0.69 0.955771
Target:  5'- gAUGUUGGAGuACaugacaugACCcGGGAGGuGGACg -3'
miRNA:   3'- -UGCAACCUC-UG--------UGGaCCUUUCuCCUG- -5'
13997 3' -52.3 NC_003521.1 + 129870 0.69 0.959495
Target:  5'- gACGagUGGGuGACgGCCgGGGAGGAGGAg -3'
miRNA:   3'- -UGCa-ACCU-CUG-UGGaCCUUUCUCCUg -5'
13997 3' -52.3 NC_003521.1 + 13831 0.69 0.967538
Target:  5'- cCGUcGGAaaGCACCUGGAAugugacgaccggaggGGAGGAUg -3'
miRNA:   3'- uGCAaCCUc-UGUGGACCUU---------------UCUCCUG- -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.