miRNA display CGI


Results 1 - 20 of 22 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
20556 3' -53.7 NC_004688.1 + 86226 0.66 0.937107
Target:  5'- gUCGAGGGGCaggcccagCACGcCuGCCGCAu -3'
miRNA:   3'- -GGCUUUCCGgaaa----GUGCaG-CGGCGUc -5'
20556 3' -53.7 NC_004688.1 + 6498 0.66 0.932005
Target:  5'- gCCGGcGAGGUCUgggcugggguugUUCA-GUCGCCGCc- -3'
miRNA:   3'- -GGCU-UUCCGGA------------AAGUgCAGCGGCGuc -5'
20556 3' -53.7 NC_004688.1 + 14993 0.66 0.932005
Target:  5'- uCCGAu-GGCCacaagCACGcucgggCGCUGCGGa -3'
miRNA:   3'- -GGCUuuCCGGaaa--GUGCa-----GCGGCGUC- -5'
20556 3' -53.7 NC_004688.1 + 19003 0.66 0.92665
Target:  5'- cUCGAuccaauGGGCCUUcUCGuCGUUGuuGUAGa -3'
miRNA:   3'- -GGCUu-----UCCGGAA-AGU-GCAGCggCGUC- -5'
20556 3' -53.7 NC_004688.1 + 75516 0.66 0.92665
Target:  5'- gCGAu-GGCCgagUUCAgGUCGCuCGgGGu -3'
miRNA:   3'- gGCUuuCCGGa--AAGUgCAGCG-GCgUC- -5'
20556 3' -53.7 NC_004688.1 + 30510 0.66 0.926101
Target:  5'- aCCGggGccucuucGGCCUUgC-CGUCGCCGa-- -3'
miRNA:   3'- -GGCuuU-------CCGGAAaGuGCAGCGGCguc -5'
20556 3' -53.7 NC_004688.1 + 33896 0.67 0.915184
Target:  5'- aCUGAAAGGCCgccaACGagcccUUGCCGCc- -3'
miRNA:   3'- -GGCUUUCCGGaaagUGC-----AGCGGCGuc -5'
20556 3' -53.7 NC_004688.1 + 62208 0.67 0.909073
Target:  5'- aCCGAAAGcGCUgg-CAUGUCcucCCGCAa -3'
miRNA:   3'- -GGCUUUC-CGGaaaGUGCAGc--GGCGUc -5'
20556 3' -53.7 NC_004688.1 + 48761 0.67 0.889257
Target:  5'- gCGggGGGCCU----CGUCcGCCGCc- -3'
miRNA:   3'- gGCuuUCCGGAaaguGCAG-CGGCGuc -5'
20556 3' -53.7 NC_004688.1 + 42364 0.68 0.874845
Target:  5'- cCCGGAAGGCg-UUgGCGUCGaCCGa-- -3'
miRNA:   3'- -GGCUUUCCGgaAAgUGCAGC-GGCguc -5'
20556 3' -53.7 NC_004688.1 + 28399 0.68 0.851522
Target:  5'- uCCGGGAaGCCgggCugGUCGCCGaAGu -3'
miRNA:   3'- -GGCUUUcCGGaaaGugCAGCGGCgUC- -5'
20556 3' -53.7 NC_004688.1 + 49393 0.68 0.851522
Target:  5'- aCGAGaaugGGGCgUUcCAUGUCGCCGUu- -3'
miRNA:   3'- gGCUU----UCCGgAAaGUGCAGCGGCGuc -5'
20556 3' -53.7 NC_004688.1 + 43494 0.68 0.851522
Target:  5'- -aGAAAGGCUUagccUUCAgGUUGCC-CAGg -3'
miRNA:   3'- ggCUUUCCGGA----AAGUgCAGCGGcGUC- -5'
20556 3' -53.7 NC_004688.1 + 13522 0.69 0.834912
Target:  5'- uCCGGAuAGGCCUgcgCgACGUCGuuGaCGGc -3'
miRNA:   3'- -GGCUU-UCCGGAaa-G-UGCAGCggC-GUC- -5'
20556 3' -53.7 NC_004688.1 + 15247 0.69 0.805834
Target:  5'- uCCGAGcuguGGGCCUacugcgguuaUCACGUggucaacggcgccgCGCCGCGGc -3'
miRNA:   3'- -GGCUU----UCCGGAa---------AGUGCA--------------GCGGCGUC- -5'
20556 3' -53.7 NC_004688.1 + 35016 0.7 0.790127
Target:  5'- gCGAcAGGCCcaUCGCGUUGucCCGCAa -3'
miRNA:   3'- gGCUuUCCGGaaAGUGCAGC--GGCGUc -5'
20556 3' -53.7 NC_004688.1 + 321 0.71 0.741591
Target:  5'- gCUGAuaguAGGCCUUguuucggCAggaGUCGCUGCAGu -3'
miRNA:   3'- -GGCUu---UCCGGAAa------GUg--CAGCGGCGUC- -5'
20556 3' -53.7 NC_004688.1 + 37041 0.71 0.700885
Target:  5'- uUCGu--GGCCgucgUCGCGUCGCUgaugGCAGg -3'
miRNA:   3'- -GGCuuuCCGGaa--AGUGCAGCGG----CGUC- -5'
20556 3' -53.7 NC_004688.1 + 7637 0.72 0.680125
Target:  5'- gCCGuc-GGCCggUUCGCcUCGUCGCGGg -3'
miRNA:   3'- -GGCuuuCCGGa-AAGUGcAGCGGCGUC- -5'
20556 3' -53.7 NC_004688.1 + 94406 0.72 0.656049
Target:  5'- cCCGGAucacgcugucgcgcGGGCCUaUCAUGUCGCCa--- -3'
miRNA:   3'- -GGCUU--------------UCCGGAaAGUGCAGCGGcguc -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.