miRNA display CGI


Results 1 - 20 of 24 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
31255 3' -55.6 NC_006560.1 + 49791 0.66 0.932092
Target:  5'- -----gGGcGCUUCGGG--CGCUUCCGu -3'
miRNA:   3'- gaaagaCC-CGGAGCCCaaGCGAAGGC- -5'
31255 3' -55.6 NC_006560.1 + 55066 0.66 0.932092
Target:  5'- --gUCgccgGGGCCcCGGGgucCGCUUuuGu -3'
miRNA:   3'- gaaAGa---CCCGGaGCCCaa-GCGAAggC- -5'
31255 3' -55.6 NC_006560.1 + 128291 0.66 0.932092
Target:  5'- -----aGGGCCcCGGGggCGCgcCCGc -3'
miRNA:   3'- gaaagaCCCGGaGCCCaaGCGaaGGC- -5'
31255 3' -55.6 NC_006560.1 + 24930 0.66 0.926891
Target:  5'- ---cCUGGGCCgCGGcGgcaacgUCGCUaCCGc -3'
miRNA:   3'- gaaaGACCCGGaGCC-Ca-----AGCGAaGGC- -5'
31255 3' -55.6 NC_006560.1 + 1523 0.66 0.92145
Target:  5'- --aUC-GGGCCcCGGGcgCGCgcCCGg -3'
miRNA:   3'- gaaAGaCCCGGaGCCCaaGCGaaGGC- -5'
31255 3' -55.6 NC_006560.1 + 139071 0.66 0.92145
Target:  5'- -----cGGGCC-CGGGggCGCgcccugCCGg -3'
miRNA:   3'- gaaagaCCCGGaGCCCaaGCGaa----GGC- -5'
31255 3' -55.6 NC_006560.1 + 145411 0.66 0.915771
Target:  5'- -----cGGGCCUCGGucccccgUCGCUcuggCCGg -3'
miRNA:   3'- gaaagaCCCGGAGCCca-----AGCGAa---GGC- -5'
31255 3' -55.6 NC_006560.1 + 34719 0.66 0.9037
Target:  5'- --cUCUcGGGCCggGGG-UCGCUcgCCGc -3'
miRNA:   3'- gaaAGA-CCCGGagCCCaAGCGAa-GGC- -5'
31255 3' -55.6 NC_006560.1 + 119747 0.66 0.9037
Target:  5'- --gUCUGcgugacGGCCUgaCGGGggCGCUgugCCGg -3'
miRNA:   3'- gaaAGAC------CCGGA--GCCCaaGCGAa--GGC- -5'
31255 3' -55.6 NC_006560.1 + 48232 0.66 0.9037
Target:  5'- ---cCUGGGCUUCGGGgacgggcccgCGCUgugcacgaUCCu -3'
miRNA:   3'- gaaaGACCCGGAGCCCaa--------GCGA--------AGGc -5'
31255 3' -55.6 NC_006560.1 + 99984 0.67 0.890694
Target:  5'- --gUCgGGGCCU-GGGUccgUCGCgcCCGg -3'
miRNA:   3'- gaaAGaCCCGGAgCCCA---AGCGaaGGC- -5'
31255 3' -55.6 NC_006560.1 + 34991 0.67 0.883849
Target:  5'- -----gGGcGCCUCGGGgcCGCgggCCGg -3'
miRNA:   3'- gaaagaCC-CGGAGCCCaaGCGaa-GGC- -5'
31255 3' -55.6 NC_006560.1 + 11605 0.67 0.876781
Target:  5'- ---gUUGGGggagaCCggCGGGggagUCGCUUCCGg -3'
miRNA:   3'- gaaaGACCC-----GGa-GCCCa---AGCGAAGGC- -5'
31255 3' -55.6 NC_006560.1 + 2183 0.67 0.869494
Target:  5'- -----aGGGCCUCGGGcccggcgcgCGCggCCGc -3'
miRNA:   3'- gaaagaCCCGGAGCCCaa-------GCGaaGGC- -5'
31255 3' -55.6 NC_006560.1 + 140443 0.68 0.838274
Target:  5'- -cUUCUGGGCUucggUCGGGgcuugcgaUCGCggcgggCCGg -3'
miRNA:   3'- gaAAGACCCGG----AGCCCa-------AGCGaa----GGC- -5'
31255 3' -55.6 NC_006560.1 + 131423 0.68 0.838274
Target:  5'- ---cCUGGGCC-CGGGccgUCGCggcgCUGg -3'
miRNA:   3'- gaaaGACCCGGaGCCCa--AGCGaa--GGC- -5'
31255 3' -55.6 NC_006560.1 + 57262 0.69 0.804063
Target:  5'- -----gGGGCCUCGGGguccggCGCggCCu -3'
miRNA:   3'- gaaagaCCCGGAGCCCaa----GCGaaGGc -5'
31255 3' -55.6 NC_006560.1 + 15086 0.69 0.794196
Target:  5'- --cUCUGGccccuccGCCUCGGGggUCGCcUCUGc -3'
miRNA:   3'- gaaAGACC-------CGGAGCCCa-AGCGaAGGC- -5'
31255 3' -55.6 NC_006560.1 + 53245 0.7 0.735615
Target:  5'- --gUCUGGGCCUCGGGca-GcCUgaacaacgagcaccUCCGg -3'
miRNA:   3'- gaaAGACCCGGAGCCCaagC-GA--------------AGGC- -5'
31255 3' -55.6 NC_006560.1 + 117660 0.7 0.728743
Target:  5'- ---cCUGGGUCUCGGcGUUCGCcgcguacaugCCGc -3'
miRNA:   3'- gaaaGACCCGGAGCC-CAAGCGaa--------GGC- -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.