miRNA display CGI


Results 1 - 20 of 29 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
27693 5' -60.7 NC_005882.1 + 25444 0.66 0.306463
Target:  5'- -cCCGCCUggggGACGCgauggCGCgGGCCGUu- -3'
miRNA:   3'- uuGGUGGA----CUGCGa----GUGgCCGGCGua -5'
27693 5' -60.7 NC_005882.1 + 21354 0.66 0.291362
Target:  5'- cGCCgACCUGAaGCUgGCCGuGCCGgAa -3'
miRNA:   3'- uUGG-UGGACUgCGAgUGGC-CGGCgUa -5'
27693 5' -60.7 NC_005882.1 + 18406 0.66 0.269813
Target:  5'- aGACCgGCCUugcGACGCg-ACgCGGCCGCGg -3'
miRNA:   3'- -UUGG-UGGA---CUGCGagUG-GCCGGCGUa -5'
27693 5' -60.7 NC_005882.1 + 21366 0.66 0.269813
Target:  5'- uACC-CCgcagGAUGCggaugacgUCGCCGGCCGCc- -3'
miRNA:   3'- uUGGuGGa---CUGCG--------AGUGGCCGGCGua -5'
27693 5' -60.7 NC_005882.1 + 28637 0.67 0.23059
Target:  5'- aAGCCGCCUuGCGCcgAUCGGaCCGCAUc -3'
miRNA:   3'- -UUGGUGGAcUGCGagUGGCC-GGCGUA- -5'
27693 5' -60.7 NC_005882.1 + 9485 0.68 0.224541
Target:  5'- aAGCCGCUgcgauUGGCGCgcuGgCGGCCGCAa -3'
miRNA:   3'- -UUGGUGG-----ACUGCGag-UgGCCGGCGUa -5'
27693 5' -60.7 NC_005882.1 + 31453 0.68 0.224541
Target:  5'- gAACCugCUGAuUGCa-GCCGGCaCGCGUg -3'
miRNA:   3'- -UUGGugGACU-GCGagUGGCCG-GCGUA- -5'
27693 5' -60.7 NC_005882.1 + 31519 0.68 0.218627
Target:  5'- cACCgACgUGACGCUCgucGCCGGCCa--- -3'
miRNA:   3'- uUGG-UGgACUGCGAG---UGGCCGGcgua -5'
27693 5' -60.7 NC_005882.1 + 19619 0.68 0.218627
Target:  5'- cGCCGCCUuGCGCUCACgCGcCUGCGc -3'
miRNA:   3'- uUGGUGGAcUGCGAGUG-GCcGGCGUa -5'
27693 5' -60.7 NC_005882.1 + 15726 0.68 0.212846
Target:  5'- -gUCGCCgUGGCGCUUgccgucguccugGCCGGUCGCGc -3'
miRNA:   3'- uuGGUGG-ACUGCGAG------------UGGCCGGCGUa -5'
27693 5' -60.7 NC_005882.1 + 1321 0.68 0.207197
Target:  5'- -uCCGCagGAUGCguuuaaCGCCGGCCGCAUc -3'
miRNA:   3'- uuGGUGgaCUGCGa-----GUGGCCGGCGUA- -5'
27693 5' -60.7 NC_005882.1 + 32016 0.68 0.201679
Target:  5'- cGGCCGCC-GACGCUCGUCGGUcagguuguCGCGUa -3'
miRNA:   3'- -UUGGUGGaCUGCGAGUGGCCG--------GCGUA- -5'
27693 5' -60.7 NC_005882.1 + 12292 0.68 0.201679
Target:  5'- cGGCCGCCgUGauGCGCUCccagagguGCCGGUCGUAc -3'
miRNA:   3'- -UUGGUGG-AC--UGCGAG--------UGGCCGGCGUa -5'
27693 5' -60.7 NC_005882.1 + 14805 0.68 0.196288
Target:  5'- cGCgGCCuUGAgCGCUCGCCGaGCUGCu- -3'
miRNA:   3'- uUGgUGG-ACU-GCGAGUGGC-CGGCGua -5'
27693 5' -60.7 NC_005882.1 + 9577 0.69 0.191024
Target:  5'- aGACCugcuCCUGGCGCgucgugcUugCGGCCGCc- -3'
miRNA:   3'- -UUGGu---GGACUGCGa------GugGCCGGCGua -5'
27693 5' -60.7 NC_005882.1 + 27587 0.69 0.171191
Target:  5'- cGGCCGCCggcauggcGACGCagGCCgcGGCCGCGg -3'
miRNA:   3'- -UUGGUGGa-------CUGCGagUGG--CCGGCGUa -5'
27693 5' -60.7 NC_005882.1 + 20504 0.7 0.16198
Target:  5'- cGCCgACCgGAuCGCU-GCCGGCCGCGg -3'
miRNA:   3'- uUGG-UGGaCU-GCGAgUGGCCGGCGUa -5'
27693 5' -60.7 NC_005882.1 + 12588 0.7 0.149
Target:  5'- cGGCCGCCgc-CGCgacaCACUGGCCGCGc -3'
miRNA:   3'- -UUGGUGGacuGCGa---GUGGCCGGCGUa -5'
27693 5' -60.7 NC_005882.1 + 17956 0.7 0.14652
Target:  5'- uGACCAgCUugagcgucgugccgaGGCGgUCGCCGGCCGCc- -3'
miRNA:   3'- -UUGGUgGA---------------CUGCgAGUGGCCGGCGua -5'
27693 5' -60.7 NC_005882.1 + 25573 0.7 0.140879
Target:  5'- -cCCGgCUGGCGCgcggCGCCGcGCUGCGUg -3'
miRNA:   3'- uuGGUgGACUGCGa---GUGGC-CGGCGUA- -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.