miRNA display CGI


Results 1 - 17 of 17 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
30666 5' -51.1 NC_006549.1 + 22163 0.66 0.980604
Target:  5'- gGAGCCGA--GGGCCUUgaccucccUGCcucucGGAGCUc -3'
miRNA:   3'- -UUCGGCUucUCCGGAA--------ACGu----UUUCGG- -5'
30666 5' -51.1 NC_006549.1 + 82811 0.66 0.980604
Target:  5'- -uGCCGGAGcGGGCUUgacgGCGuccGCCu -3'
miRNA:   3'- uuCGGCUUC-UCCGGAaa--CGUuuuCGG- -5'
30666 5' -51.1 NC_006549.1 + 40875 0.67 0.972899
Target:  5'- uGGuCCGAAGGGGCCacaaggaGaCAAAGGCg -3'
miRNA:   3'- uUC-GGCUUCUCCGGaaa----C-GUUUUCGg -5'
30666 5' -51.1 NC_006549.1 + 77218 0.68 0.954691
Target:  5'- cGGGCCGAggagcGGAGGCgUcuccgcuccaacUGCAGAGGCa -3'
miRNA:   3'- -UUCGGCU-----UCUCCGgAa-----------ACGUUUUCGg -5'
30666 5' -51.1 NC_006549.1 + 40920 0.68 0.95042
Target:  5'- gGGGCCG-AGAGGaaaCgaaggauucgGCGGGAGCCu -3'
miRNA:   3'- -UUCGGCuUCUCCg--Gaaa-------CGUUUUCGG- -5'
30666 5' -51.1 NC_006549.1 + 7642 0.68 0.946815
Target:  5'- cGGGUCGcAGAGGCgCcaggggaUUGCAAGGGCUa -3'
miRNA:   3'- -UUCGGCuUCUCCG-Ga------AACGUUUUCGG- -5'
30666 5' -51.1 NC_006549.1 + 65243 0.68 0.942071
Target:  5'- cGGUCaAAGAaccGCCUUUGCAAgcuuGAGCCg -3'
miRNA:   3'- uUCGGcUUCUc--CGGAAACGUU----UUCGG- -5'
30666 5' -51.1 NC_006549.1 + 97220 0.68 0.937062
Target:  5'- -cGCCGAcaacAGAcuGGCCgugaugGCGAGAGCa -3'
miRNA:   3'- uuCGGCU----UCU--CCGGaaa---CGUUUUCGg -5'
30666 5' -51.1 NC_006549.1 + 122478 0.69 0.931784
Target:  5'- ----aGAGucGGCUUUUGCAAAGGCCu -3'
miRNA:   3'- uucggCUUcuCCGGAAACGUUUUCGG- -5'
30666 5' -51.1 NC_006549.1 + 78245 0.69 0.914333
Target:  5'- cAGCCGGAuauGGCCUUUcucgcGCGAAAGgCg -3'
miRNA:   3'- uUCGGCUUcu-CCGGAAA-----CGUUUUCgG- -5'
30666 5' -51.1 NC_006549.1 + 22922 0.69 0.907979
Target:  5'- gAAGCCGAAG-GGCUauuuacgUGCGAGGcuuccGCCg -3'
miRNA:   3'- -UUCGGCUUCuCCGGaa-----ACGUUUU-----CGG- -5'
30666 5' -51.1 NC_006549.1 + 77492 0.7 0.879941
Target:  5'- gAAGCCGAGcgcauagcaaacGAGG-CUUUGCGAgucucuaaacAGGCCa -3'
miRNA:   3'- -UUCGGCUU------------CUCCgGAAACGUU----------UUCGG- -5'
30666 5' -51.1 NC_006549.1 + 70638 0.7 0.872297
Target:  5'- cGGCgGAAGAGGCCguggcguugUGCGGuuuGGGCg -3'
miRNA:   3'- uUCGgCUUCUCCGGaa-------ACGUU---UUCGg -5'
30666 5' -51.1 NC_006549.1 + 5950 0.71 0.86441
Target:  5'- cGGgCGu-GGGGCCUUUGCAGgcGUCa -3'
miRNA:   3'- uUCgGCuuCUCCGGAAACGUUuuCGG- -5'
30666 5' -51.1 NC_006549.1 + 53298 0.74 0.701527
Target:  5'- --cCCGAAGAGGCCgcgGCGGGagaagacccAGCCa -3'
miRNA:   3'- uucGGCUUCUCCGGaaaCGUUU---------UCGG- -5'
30666 5' -51.1 NC_006549.1 + 122439 0.75 0.615005
Target:  5'- -uGCCGcAucGGCCUUUGCGGAGGCa -3'
miRNA:   3'- uuCGGCuUcuCCGGAAACGUUUUCGg -5'
30666 5' -51.1 NC_006549.1 + 53443 0.76 0.582532
Target:  5'- cGGCCGAAGAGa---UUGCGGAAGCCg -3'
miRNA:   3'- uUCGGCUUCUCcggaAACGUUUUCGG- -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.