miRNA display CGI


Results 1 - 18 of 18 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
12549 3' -53.9 NC_003345.1 + 6292 0.66 0.888875
Target:  5'- --cGCCUcUCGUGGCGGcucaaaGCUC-CGGuGUg -3'
miRNA:   3'- ucuUGGA-AGCACCGCU------UGAGaGCC-CG- -5'
12549 3' -53.9 NC_003345.1 + 62949 0.66 0.881585
Target:  5'- cGGGGCCUaCGcUGGC---CUC-CGGGCg -3'
miRNA:   3'- -UCUUGGAaGC-ACCGcuuGAGaGCCCG- -5'
12549 3' -53.9 NC_003345.1 + 53051 0.66 0.881585
Target:  5'- gAGGACgCUuucaacUCGaUGGCGAccAUcCUCGGGUg -3'
miRNA:   3'- -UCUUG-GA------AGC-ACCGCU--UGaGAGCCCG- -5'
12549 3' -53.9 NC_003345.1 + 8761 0.66 0.881585
Target:  5'- gAGAACUUcagcgagGUGGcCGAGCUaaUCGGGCc -3'
miRNA:   3'- -UCUUGGAag-----CACC-GCUUGAg-AGCCCG- -5'
12549 3' -53.9 NC_003345.1 + 58723 0.66 0.858261
Target:  5'- gAGAACgauaUUGUGGCGAGCUUaUCGGa- -3'
miRNA:   3'- -UCUUGga--AGCACCGCUUGAG-AGCCcg -5'
12549 3' -53.9 NC_003345.1 + 28808 0.66 0.858261
Target:  5'- gGGAAUCUaccUUGagGGCGAGUUCUaCGGGUg -3'
miRNA:   3'- -UCUUGGA---AGCa-CCGCUUGAGA-GCCCG- -5'
12549 3' -53.9 NC_003345.1 + 16433 0.67 0.841564
Target:  5'- cGAACCaguaccCGUGGCccucGugUUCUCGGGUa -3'
miRNA:   3'- uCUUGGaa----GCACCG----CuuGAGAGCCCG- -5'
12549 3' -53.9 NC_003345.1 + 40329 0.67 0.841564
Target:  5'- cGAGCUUguaGUgGGUGGACUCcagcguggugCGGGCg -3'
miRNA:   3'- uCUUGGAag-CA-CCGCUUGAGa---------GCCCG- -5'
12549 3' -53.9 NC_003345.1 + 65891 0.67 0.840706
Target:  5'- gAGcGCCUUCG-GGCGAAUgaacaCUCGcuugaacGGCa -3'
miRNA:   3'- -UCuUGGAAGCaCCGCUUGa----GAGC-------CCG- -5'
12549 3' -53.9 NC_003345.1 + 58831 0.67 0.82402
Target:  5'- gGGGACgU---UGGCGAGCUaUCGGGUu -3'
miRNA:   3'- -UCUUGgAagcACCGCUUGAgAGCCCG- -5'
12549 3' -53.9 NC_003345.1 + 53779 0.67 0.818603
Target:  5'- -cGACCcUCGUGGCGGGggugaacggcguuucCgUCUCGGGa -3'
miRNA:   3'- ucUUGGaAGCACCGCUU---------------G-AGAGCCCg -5'
12549 3' -53.9 NC_003345.1 + 1152 0.68 0.786682
Target:  5'- cGGGCCUaUGUGGUuuaGGGCcggUUCGGGCc -3'
miRNA:   3'- uCUUGGAaGCACCG---CUUGa--GAGCCCG- -5'
12549 3' -53.9 NC_003345.1 + 42483 0.68 0.776936
Target:  5'- aGGAAa--UCGaaGGCGAcCUCUUGGGCg -3'
miRNA:   3'- -UCUUggaAGCa-CCGCUuGAGAGCCCG- -5'
12549 3' -53.9 NC_003345.1 + 67645 0.69 0.746873
Target:  5'- gAGAGuuuCCUUCGggGGCuucCUCUCGGGg -3'
miRNA:   3'- -UCUU---GGAAGCa-CCGcuuGAGAGCCCg -5'
12549 3' -53.9 NC_003345.1 + 45967 0.7 0.673314
Target:  5'- uGAGCCUgccuacaaCGUGGCGAACuucaagaacgUCUCcgaggacauucaGGGCg -3'
miRNA:   3'- uCUUGGAa-------GCACCGCUUG----------AGAG------------CCCG- -5'
12549 3' -53.9 NC_003345.1 + 3299 0.7 0.651803
Target:  5'- cGGAGCCUUCGUauuccuccGGCu--CUCUCGuuGGCu -3'
miRNA:   3'- -UCUUGGAAGCA--------CCGcuuGAGAGC--CCG- -5'
12549 3' -53.9 NC_003345.1 + 60224 0.72 0.555196
Target:  5'- -uGGCCgagUCGUGGCGGAacgCUCaGGCu -3'
miRNA:   3'- ucUUGGa--AGCACCGCUUga-GAGcCCG- -5'
12549 3' -53.9 NC_003345.1 + 35402 1.11 0.001656
Target:  5'- cAGAACCUUCGUGGCGAACUCUCGGGCc -3'
miRNA:   3'- -UCUUGGAAGCACCGCUUGAGAGCCCG- -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.