miRNA display CGI


Results 1 - 20 of 75 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
12782 3' -60.3 NC_003387.1 + 50987 0.69 0.281661
Target:  5'- aUGCugUCGAUcagcacCGGGAUGCgCCGCCc-GGCc -3'
miRNA:   3'- -ACG--AGCUA------GCCCUACG-GGCGGcuCCG- -5'
12782 3' -60.3 NC_003387.1 + 50869 0.77 0.081367
Target:  5'- cGCUCGAUUGGGucGCCCuugagaacGUCGGGGCg -3'
miRNA:   3'- aCGAGCUAGCCCuaCGGG--------CGGCUCCG- -5'
12782 3' -60.3 NC_003387.1 + 49335 1.1 0.000275
Target:  5'- gUGCUCGAUCGGGAUGCCCGCCGAGGCc -3'
miRNA:   3'- -ACGAGCUAGCCCUACGGGCGGCUCCG- -5'
12782 3' -60.3 NC_003387.1 + 49225 0.71 0.229073
Target:  5'- cUGC-CGGUCGaGGcgGCCgagcggcugcucgaCGCCGGGGUg -3'
miRNA:   3'- -ACGaGCUAGC-CCuaCGG--------------GCGGCUCCG- -5'
12782 3' -60.3 NC_003387.1 + 49055 0.72 0.178377
Target:  5'- gGcCUCGGUCaGGccGCUCaGCCGGGGCa -3'
miRNA:   3'- aC-GAGCUAGcCCuaCGGG-CGGCUCCG- -5'
12782 3' -60.3 NC_003387.1 + 47016 0.71 0.219382
Target:  5'- gUGCUCGAcuUCauuGGcgGCCCGgCCG-GGCa -3'
miRNA:   3'- -ACGAGCU--AGc--CCuaCGGGC-GGCuCCG- -5'
12782 3' -60.3 NC_003387.1 + 44974 0.68 0.333101
Target:  5'- gGCcgCGAUCGccgcUG-CCGCCGAGGCg -3'
miRNA:   3'- aCGa-GCUAGCccu-ACgGGCGGCUCCG- -5'
12782 3' -60.3 NC_003387.1 + 44520 0.67 0.382425
Target:  5'- cUGUUCGugcCGGGccGCCCggcGCCGcaGGGCu -3'
miRNA:   3'- -ACGAGCua-GCCCuaCGGG---CGGC--UCCG- -5'
12782 3' -60.3 NC_003387.1 + 43924 0.66 0.445786
Target:  5'- gGCgCGAgcugagCGGGAaucaggucGCCCGCCGccGCa -3'
miRNA:   3'- aCGaGCUa-----GCCCUa-------CGGGCGGCucCG- -5'
12782 3' -60.3 NC_003387.1 + 43818 0.67 0.391104
Target:  5'- gUGCUgcaCGAUCGGcGAgggcgagGCCgagGUCGGGGCg -3'
miRNA:   3'- -ACGA---GCUAGCC-CUa------CGGg--CGGCUCCG- -5'
12782 3' -60.3 NC_003387.1 + 43720 0.69 0.295685
Target:  5'- gUGCUCGAcggcggcaugCGGGA-GCCCGCgagCGuguuGGCg -3'
miRNA:   3'- -ACGAGCUa---------GCCCUaCGGGCG---GCu---CCG- -5'
12782 3' -60.3 NC_003387.1 + 42748 0.69 0.294971
Target:  5'- gUGCUCgGAUCGGcugcgcuGGUGCCCcgaGUCG-GGCa -3'
miRNA:   3'- -ACGAG-CUAGCC-------CUACGGG---CGGCuCCG- -5'
12782 3' -60.3 NC_003387.1 + 42028 0.74 0.126161
Target:  5'- gGCUUGAUaccGGcgGCcaCCGCCGAGGCg -3'
miRNA:   3'- aCGAGCUAgc-CCuaCG--GGCGGCUCCG- -5'
12782 3' -60.3 NC_003387.1 + 40470 0.73 0.171039
Target:  5'- cGCggGAuauUCGGGAUcgggugcacgcucucGCCaCGCCGGGGCa -3'
miRNA:   3'- aCGagCU---AGCCCUA---------------CGG-GCGGCUCCG- -5'
12782 3' -60.3 NC_003387.1 + 40423 0.67 0.399912
Target:  5'- cGCUCGugcCGGuGcccgGCCCGCUGAuccGGCc -3'
miRNA:   3'- aCGAGCua-GCC-Cua--CGGGCGGCU---CCG- -5'
12782 3' -60.3 NC_003387.1 + 35594 0.76 0.093171
Target:  5'- aGCUggucgacacagCGAUCGccuacggccccgaGGA-GCCCGCCGAGGCg -3'
miRNA:   3'- aCGA-----------GCUAGC-------------CCUaCGGGCGGCUCCG- -5'
12782 3' -60.3 NC_003387.1 + 35075 0.66 0.427079
Target:  5'- uUGCccuugUCGGUCGGGccgagGCUCGCCuucaacgguucGAGGUc -3'
miRNA:   3'- -ACG-----AGCUAGCCCua---CGGGCGG-----------CUCCG- -5'
12782 3' -60.3 NC_003387.1 + 34757 0.66 0.451487
Target:  5'- uUGCUUGAccgacgaccacacCGGGGucUGCCCGUCcucGGGCg -3'
miRNA:   3'- -ACGAGCUa------------GCCCU--ACGGGCGGc--UCCG- -5'
12782 3' -60.3 NC_003387.1 + 34520 0.68 0.31773
Target:  5'- cGCcgCGAuccUCGGGcUGCCCGUCGAcccGCu -3'
miRNA:   3'- aCGa-GCU---AGCCCuACGGGCGGCUc--CG- -5'
12782 3' -60.3 NC_003387.1 + 34516 0.66 0.45531
Target:  5'- cGC-CGGUCGuc--GCgUCGCCGAGGCg -3'
miRNA:   3'- aCGaGCUAGCccuaCG-GGCGGCUCCG- -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.