miRNA display CGI


Results 1 - 20 of 20 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
1454 3' -59.2 NC_001335.1 + 1205 0.66 0.497739
Target:  5'- cAGCGGAGGCgGCAaGGGaacggCAGCgC-CGg -3'
miRNA:   3'- -UCGCCUUCGgCGU-CCCga---GUUG-GaGC- -5'
1454 3' -59.2 NC_001335.1 + 4820 0.66 0.477561
Target:  5'- aAGCGGAuGCCccgagGC-GGGCcagCGGCCUUGc -3'
miRNA:   3'- -UCGCCUuCGG-----CGuCCCGa--GUUGGAGC- -5'
1454 3' -59.2 NC_001335.1 + 12316 0.66 0.448076
Target:  5'- cAGUGGAAGgCGUA---CUCGGCCUCGa -3'
miRNA:   3'- -UCGCCUUCgGCGUcccGAGUUGGAGC- -5'
1454 3' -59.2 NC_001335.1 + 34470 0.66 0.448076
Target:  5'- cAGCGGGuguacgacgugAGCCGCauccggccgcaaGGGGC-CAAgCUCa -3'
miRNA:   3'- -UCGCCU-----------UCGGCG------------UCCCGaGUUgGAGc -5'
1454 3' -59.2 NC_001335.1 + 8618 0.67 0.419629
Target:  5'- gAGCGccAGGCCGUcgAGGGUUUccGCCUCGg -3'
miRNA:   3'- -UCGCc-UUCGGCG--UCCCGAGu-UGGAGC- -5'
1454 3' -59.2 NC_001335.1 + 7199 0.67 0.419629
Target:  5'- cAGcCGGuGGCCGUAuuGaGGCagCGACCUCGa -3'
miRNA:   3'- -UC-GCCuUCGGCGU--C-CCGa-GUUGGAGC- -5'
1454 3' -59.2 NC_001335.1 + 7311 0.67 0.404002
Target:  5'- gGGCGGuuacccuccaucgaCGCGGGGCUCGaggucgcuGCCUCa -3'
miRNA:   3'- -UCGCCuucg----------GCGUCCCGAGU--------UGGAGc -5'
1454 3' -59.2 NC_001335.1 + 29186 0.67 0.401282
Target:  5'- uGGUGGAGGuCCGCAccGUUCucgaauGCCUCGa -3'
miRNA:   3'- -UCGCCUUC-GGCGUccCGAGu-----UGGAGC- -5'
1454 3' -59.2 NC_001335.1 + 5054 0.67 0.401282
Target:  5'- uGCGGuuGCCGUGGGaCUCccagucgacGCCUCGg -3'
miRNA:   3'- uCGCCuuCGGCGUCCcGAGu--------UGGAGC- -5'
1454 3' -59.2 NC_001335.1 + 16059 0.68 0.374741
Target:  5'- cGGCGGcAGCCG-GGGGCUCGGagaUCu -3'
miRNA:   3'- -UCGCCuUCGGCgUCCCGAGUUgg-AGc -5'
1454 3' -59.2 NC_001335.1 + 1834 0.68 0.374741
Target:  5'- cGGCGuGggGCUGU-GGGC-CAGCCUg- -3'
miRNA:   3'- -UCGC-CuuCGGCGuCCCGaGUUGGAgc -5'
1454 3' -59.2 NC_001335.1 + 15881 0.68 0.349413
Target:  5'- gAGCGGGAGCUuaAGGGCgaugucgagaUCAACggucauCUCGa -3'
miRNA:   3'- -UCGCCUUCGGcgUCCCG----------AGUUG------GAGC- -5'
1454 3' -59.2 NC_001335.1 + 32430 0.69 0.312996
Target:  5'- gAGCcaagGGGAGCUGUagaAGGGCUUcgcugcccccuggcuGACCUCGu -3'
miRNA:   3'- -UCG----CCUUCGGCG---UCCCGAG---------------UUGGAGC- -5'
1454 3' -59.2 NC_001335.1 + 39586 0.69 0.292997
Target:  5'- uGCGaGAGGCCGaaAGGGCcggcauucccgucaUCAACUUCGg -3'
miRNA:   3'- uCGC-CUUCGGCg-UCCCG--------------AGUUGGAGC- -5'
1454 3' -59.2 NC_001335.1 + 9722 0.7 0.274009
Target:  5'- aGGaaGAGGCCGCAauGGGuCUCGGCCUg- -3'
miRNA:   3'- -UCgcCUUCGGCGU--CCC-GAGUUGGAgc -5'
1454 3' -59.2 NC_001335.1 + 43732 0.7 0.267231
Target:  5'- cGUGGuuGCCGCAGGGCaccgcguuUCAcACCgUCGc -3'
miRNA:   3'- uCGCCuuCGGCGUCCCG--------AGU-UGG-AGC- -5'
1454 3' -59.2 NC_001335.1 + 3227 0.7 0.267231
Target:  5'- gAGCGGcugguAGCgGCAGcGGCUCuagaaaccCCUCGg -3'
miRNA:   3'- -UCGCCu----UCGgCGUC-CCGAGuu------GGAGC- -5'
1454 3' -59.2 NC_001335.1 + 23984 0.7 0.254082
Target:  5'- cAGCGGAcGCCGUgguguuuccuccAGGGCcucCGGCCUUGc -3'
miRNA:   3'- -UCGCCUuCGGCG------------UCCCGa--GUUGGAGC- -5'
1454 3' -59.2 NC_001335.1 + 9864 0.78 0.081572
Target:  5'- cGGCGGu-GCCGUGGGGCUCGgggaGCCUgGg -3'
miRNA:   3'- -UCGCCuuCGGCGUCCCGAGU----UGGAgC- -5'
1454 3' -59.2 NC_001335.1 + 10386 1.09 0.000377
Target:  5'- cAGCGGAAGCCGCAGGGCUCAACCUCGa -3'
miRNA:   3'- -UCGCCUUCGGCGUCCCGAGUUGGAGC- -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.