miRNA display CGI


Results 1 - 20 of 31 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
2272 3' -55.9 NC_001405.1 + 26521 1.14 0.000207
Target:  5'- gGCCGGUAAGUCUAAGCAGCCGCCGCCg -3'
miRNA:   3'- -CGGCCAUUCAGAUUCGUCGGCGGCGG- -5'
2272 3' -55.9 NC_001405.1 + 1436 0.66 0.583817
Target:  5'- uGCCGuGaGAGUU--GGUGGgCGUCGCCa -3'
miRNA:   3'- -CGGC-CaUUCAGauUCGUCgGCGGCGG- -5'
2272 3' -55.9 NC_001405.1 + 17633 0.66 0.582697
Target:  5'- aGCCGGUcuuuguGGUUcuuGCAGauauggcccucacCUGCCGCCu -3'
miRNA:   3'- -CGGCCAu-----UCAGauuCGUC-------------GGCGGCGG- -5'
2272 3' -55.9 NC_001405.1 + 10909 0.66 0.572638
Target:  5'- cCCGGUucGAGUCUcGGGcCGGCCGgaCUGCg -3'
miRNA:   3'- cGGCCA--UUCAGA-UUC-GUCGGC--GGCGg -5'
2272 3' -55.9 NC_001405.1 + 18775 0.66 0.56151
Target:  5'- cGCCGccaGAGgagcugCUGAGCcGCCGUgCGCCc -3'
miRNA:   3'- -CGGCca-UUCa-----GAUUCGuCGGCG-GCGG- -5'
2272 3' -55.9 NC_001405.1 + 33197 0.66 0.532877
Target:  5'- gGgCGGU-GGUgCUGcagcAGCGcgcgaauaaacugcuGCCGCCGCCg -3'
miRNA:   3'- -CgGCCAuUCA-GAU----UCGU---------------CGGCGGCGG- -5'
2272 3' -55.9 NC_001405.1 + 9547 0.67 0.517675
Target:  5'- cCCGGUuauGGGUUggcGGGgGGCUGCCGUg -3'
miRNA:   3'- cGGCCA---UUCAGa--UUCgUCGGCGGCGg -5'
2272 3' -55.9 NC_001405.1 + 4943 0.67 0.485713
Target:  5'- aCUGGU-AGUUaagagagcuGCAGCUGCCGUCa -3'
miRNA:   3'- cGGCCAuUCAGauu------CGUCGGCGGCGG- -5'
2272 3' -55.9 NC_001405.1 + 23617 0.68 0.454721
Target:  5'- aCUGGgucGUCUucauuCAGCCGCCGCa -3'
miRNA:   3'- cGGCCauuCAGAuuc--GUCGGCGGCGg -5'
2272 3' -55.9 NC_001405.1 + 8616 0.68 0.454721
Target:  5'- cGCCGGgagAGGgggcagGGGCAcGUCGgCGCCg -3'
miRNA:   3'- -CGGCCa--UUCaga---UUCGU-CGGCgGCGG- -5'
2272 3' -55.9 NC_001405.1 + 3548 0.72 0.244676
Target:  5'- --aGGUGggGGUCUcauguaguuuuguAucuguuuugcAGCAGCCGCCGCCa -3'
miRNA:   3'- cggCCAU--UCAGA-------------U----------UCGUCGGCGGCGG- -5'
2272 3' -55.9 NC_001405.1 + 3760 0.7 0.334266
Target:  5'- cGCCGuugGAGaCUGcAGCcuCCGCCGCCg -3'
miRNA:   3'- -CGGCca-UUCaGAU-UCGucGGCGGCGG- -5'
2272 3' -55.9 NC_001405.1 + 16305 0.7 0.334266
Target:  5'- uGCCccccaGGUccAGG-CgacGAGCGGCCGCCGCa -3'
miRNA:   3'- -CGG-----CCA--UUCaGa--UUCGUCGGCGGCGg -5'
2272 3' -55.9 NC_001405.1 + 17268 0.69 0.359895
Target:  5'- uGCCGc--GGUgcAGGCGGCCGCUGCg -3'
miRNA:   3'- -CGGCcauUCAgaUUCGUCGGCGGCGg -5'
2272 3' -55.9 NC_001405.1 + 11452 0.69 0.39521
Target:  5'- aCCGGgauuAGUCccGcgcgcgcacacguGGCGGCCGCCGaCCu -3'
miRNA:   3'- cGGCCau--UCAGa-U-------------UCGUCGGCGGC-GG- -5'
2272 3' -55.9 NC_001405.1 + 10539 0.68 0.415131
Target:  5'- gGCCGGUGAGgcgugcGCAGUCGUugaCGCUc -3'
miRNA:   3'- -CGGCCAUUCagauu-CGUCGGCG---GCGG- -5'
2272 3' -55.9 NC_001405.1 + 16288 0.81 0.055426
Target:  5'- gGCCGGUGcgacgugcgcGGUU-AAGCagGGCCGCCGCCg -3'
miRNA:   3'- -CGGCCAU----------UCAGaUUCG--UCGGCGGCGG- -5'
2272 3' -55.9 NC_001405.1 + 15142 0.66 0.56151
Target:  5'- uGCCGcGUugGAGUUcucuUccGC-GCCGCUGCCa -3'
miRNA:   3'- -CGGC-CA--UUCAG----AuuCGuCGGCGGCGG- -5'
2272 3' -55.9 NC_001405.1 + 11539 0.66 0.56151
Target:  5'- -gCGGUuaccAGGUC--GGCGGCCGCCa-- -3'
miRNA:   3'- cgGCCA----UUCAGauUCGUCGGCGGcgg -5'
2272 3' -55.9 NC_001405.1 + 27915 0.66 0.550442
Target:  5'- aCUGGUcauucAGUC---GUAGCCGuCCGCCg -3'
miRNA:   3'- cGGCCAu----UCAGauuCGUCGGC-GGCGG- -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.