miRNA display CGI


Results 1 - 20 of 42 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
27134 3' -55.2 NC_005832.1 + 43552 0.66 0.880775
Target:  5'- -gUGUGCuCUCUUGGGG--ACGGaGAGUa -3'
miRNA:   3'- ggACGCG-GAGAACUCCguUGUC-CUCG- -5'
27134 3' -55.2 NC_005832.1 + 46974 0.66 0.880775
Target:  5'- aCCUG-GaCUC-UGAGGCca-GGGAGCu -3'
miRNA:   3'- -GGACgCgGAGaACUCCGuugUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 36861 0.66 0.880046
Target:  5'- gCUUGCauGUUUCUuuguuugUGAGGUGACAGGAaauGCa -3'
miRNA:   3'- -GGACG--CGGAGA-------ACUCCGUUGUCCU---CG- -5'
27134 3' -55.2 NC_005832.1 + 28008 0.66 0.873381
Target:  5'- cCCUcGCGCCUaagGAGGUc-CAGG-GCc -3'
miRNA:   3'- -GGA-CGCGGAgaaCUCCGuuGUCCuCG- -5'
27134 3' -55.2 NC_005832.1 + 4902 0.66 0.865756
Target:  5'- cCCUGCGCCaUCa--GGGUGACuguuAGGAGa -3'
miRNA:   3'- -GGACGCGG-AGaacUCCGUUG----UCCUCg -5'
27134 3' -55.2 NC_005832.1 + 82064 0.66 0.860286
Target:  5'- --cGCGCCUCagauuggcuggaaUUguaaacccagacguaGAGGgAGCGGGAGCc -3'
miRNA:   3'- ggaCGCGGAG-------------AA---------------CUCCgUUGUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 98684 0.66 0.857908
Target:  5'- cUCU-UGUCUCaUGAGcGCcGCGGGAGCu -3'
miRNA:   3'- -GGAcGCGGAGaACUC-CGuUGUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 56784 0.66 0.857908
Target:  5'- gCCUGCGCCUgCU--GGGCGAUguugucuauGAGCu -3'
miRNA:   3'- -GGACGCGGA-GAacUCCGUUGuc-------CUCG- -5'
27134 3' -55.2 NC_005832.1 + 68035 0.66 0.849842
Target:  5'- gCCUuuGCCUCc-GAGGUggagGAgAGGGGCg -3'
miRNA:   3'- -GGAcgCGGAGaaCUCCG----UUgUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 70426 0.66 0.849842
Target:  5'- cCCUGCGUCUUcUGAuuuGGCGgggaucuuACuGGAGUc -3'
miRNA:   3'- -GGACGCGGAGaACU---CCGU--------UGuCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 15935 0.66 0.849842
Target:  5'- --aGCGCCUCUcccGGCAGCuucaAGaGAGCc -3'
miRNA:   3'- ggaCGCGGAGAacuCCGUUG----UC-CUCG- -5'
27134 3' -55.2 NC_005832.1 + 47945 0.66 0.849024
Target:  5'- uCCUGCuGUCUCUcGAGGcCGACGacuaccccgaggcGGAGg -3'
miRNA:   3'- -GGACG-CGGAGAaCUCC-GUUGU-------------CCUCg -5'
27134 3' -55.2 NC_005832.1 + 27984 0.67 0.841567
Target:  5'- aUCUGCGCUcg--GAGGCuuCAcgguguccGGAGCa -3'
miRNA:   3'- -GGACGCGGagaaCUCCGuuGU--------CCUCG- -5'
27134 3' -55.2 NC_005832.1 + 12315 0.67 0.841567
Target:  5'- aCUUGCGCUugcacuUCUcaaAGGCcuCGGGAGCc -3'
miRNA:   3'- -GGACGCGG------AGAac-UCCGuuGUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 87438 0.67 0.841567
Target:  5'- aCUgGgGCCUCgggGAuGGCGACGGcGGCu -3'
miRNA:   3'- gGA-CgCGGAGaa-CU-CCGUUGUCcUCG- -5'
27134 3' -55.2 NC_005832.1 + 785 0.67 0.824416
Target:  5'- aCUUGgGUCUUUuuuaUGcGGGCGcACAGGGGCu -3'
miRNA:   3'- -GGACgCGGAGA----AC-UCCGU-UGUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 78823 0.67 0.824416
Target:  5'- aCUGCGCCUUUggcgUGAgcggucugcgccGGCcACucuGGGGCg -3'
miRNA:   3'- gGACGCGGAGA----ACU------------CCGuUGu--CCUCG- -5'
27134 3' -55.2 NC_005832.1 + 97227 0.67 0.806521
Target:  5'- gCCUGCuccaggGCgUC-UGAGGuCGACAGG-GCc -3'
miRNA:   3'- -GGACG------CGgAGaACUCC-GUUGUCCuCG- -5'
27134 3' -55.2 NC_005832.1 + 84109 0.67 0.806521
Target:  5'- gUCUGUucuuGCCgggagaUGAGGCucucacGACGGGAGCg -3'
miRNA:   3'- -GGACG----CGGaga---ACUCCG------UUGUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 56493 0.68 0.787953
Target:  5'- uCCUG-GCCUCUguGGGUcuuauaggAGgAGGAGCa -3'
miRNA:   3'- -GGACgCGGAGAacUCCG--------UUgUCCUCG- -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.