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
20429 3' -55 NC_004688.1 + 6504 0.66 0.87868
Target:  5'- gCGAGCgccggCGaGGUcuGGGCUggGGUUGUu -3'
miRNA:   3'- -GUUCGaa---GCgUCG--CCCGGuuCCAACG- -5'
20429 3' -55 NC_004688.1 + 21134 0.66 0.871163
Target:  5'- --cGCggagGCAGUcgGGGCCGAGGUgGUg -3'
miRNA:   3'- guuCGaag-CGUCG--CCCGGUUCCAaCG- -5'
20429 3' -55 NC_004688.1 + 1761 0.66 0.871163
Target:  5'- cCGGGUaUUGCAGCGcauaGGCgAGGGcgGCg -3'
miRNA:   3'- -GUUCGaAGCGUCGC----CCGgUUCCaaCG- -5'
20429 3' -55 NC_004688.1 + 25932 0.66 0.868863
Target:  5'- -uGGCcggUCGCgAGCGGGCCAcccaccgacgucuuAGGcaagGCc -3'
miRNA:   3'- guUCGa--AGCG-UCGCCCGGU--------------UCCaa--CG- -5'
20429 3' -55 NC_004688.1 + 67591 0.66 0.863416
Target:  5'- -cGGCggCGguCGGCGGGCUGAGGUc-- -3'
miRNA:   3'- guUCGaaGC--GUCGCCCGGUUCCAacg -5'
20429 3' -55 NC_004688.1 + 7019 0.66 0.847252
Target:  5'- uCGGGCcagUCGUggauAGCGGGCguGGGcuugGCg -3'
miRNA:   3'- -GUUCGa--AGCG----UCGCCCGguUCCaa--CG- -5'
20429 3' -55 NC_004688.1 + 849 0.67 0.83885
Target:  5'- gCAGGCggugUgGCAGCGGGaCGGGaaUGCc -3'
miRNA:   3'- -GUUCGa---AgCGUCGCCCgGUUCcaACG- -5'
20429 3' -55 NC_004688.1 + 16194 0.67 0.812461
Target:  5'- uCGAGCUg-GCGGCGGGgCCGugcgcagcGGGaagGCa -3'
miRNA:   3'- -GUUCGAagCGUCGCCC-GGU--------UCCaa-CG- -5'
20429 3' -55 NC_004688.1 + 41953 0.67 0.812461
Target:  5'- -cAGCccCGCcuuGCGGGCCuugucccGGUUGCc -3'
miRNA:   3'- guUCGaaGCGu--CGCCCGGuu-----CCAACG- -5'
20429 3' -55 NC_004688.1 + 56492 0.67 0.812461
Target:  5'- uCAAGCcagCGCuGCaGGGUCAGGGc-GCg -3'
miRNA:   3'- -GUUCGaa-GCGuCG-CCCGGUUCCaaCG- -5'
20429 3' -55 NC_004688.1 + 79848 0.67 0.803299
Target:  5'- aCGGGCgcccgUCgGCcgAGUGGGCCcAAGGU-GCg -3'
miRNA:   3'- -GUUCGa----AG-CG--UCGCCCGG-UUCCAaCG- -5'
20429 3' -55 NC_004688.1 + 12339 0.68 0.79397
Target:  5'- gGAGCc-CGUGGCGacGCCGAGGUUGg -3'
miRNA:   3'- gUUCGaaGCGUCGCc-CGGUUCCAACg -5'
20429 3' -55 NC_004688.1 + 8783 0.68 0.773877
Target:  5'- cCAAGgUgccggacUUGguGCGGGCCAgcGGGgUGCc -3'
miRNA:   3'- -GUUCgA-------AGCguCGCCCGGU--UCCaACG- -5'
20429 3' -55 NC_004688.1 + 19947 0.68 0.765076
Target:  5'- cCAAGCUUUGCGGCcuGGGCgucGGUcagcucgaugaUGCg -3'
miRNA:   3'- -GUUCGAAGCGUCG--CCCGguuCCA-----------ACG- -5'
20429 3' -55 NC_004688.1 + 72612 0.69 0.735034
Target:  5'- gCGAGCaUgGCcaAGCacGCCGAGGUUGCa -3'
miRNA:   3'- -GUUCGaAgCG--UCGccCGGUUCCAACG- -5'
20429 3' -55 NC_004688.1 + 107327 0.7 0.662037
Target:  5'- uGAGCUauUCuCGGCGGGC-AAGGUgaucUGCg -3'
miRNA:   3'- gUUCGA--AGcGUCGCCCGgUUCCA----ACG- -5'
20429 3' -55 NC_004688.1 + 24875 0.7 0.640799
Target:  5'- -uAGCaUCGCcugcAGCGGaGCCGuggcgAGGUUGCc -3'
miRNA:   3'- guUCGaAGCG----UCGCC-CGGU-----UCCAACG- -5'
20429 3' -55 NC_004688.1 + 78179 0.7 0.640799
Target:  5'- uGGGCUUCGUAGCgcaaaaGGGCCcu-GUUGUa -3'
miRNA:   3'- gUUCGAAGCGUCG------CCCGGuucCAACG- -5'
20429 3' -55 NC_004688.1 + 43738 0.72 0.515059
Target:  5'- uCGGGCcugccugCGUAgcccGCGGGCCAGGGgcGCa -3'
miRNA:   3'- -GUUCGaa-----GCGU----CGCCCGGUUCCaaCG- -5'
20429 3' -55 NC_004688.1 + 3123 0.74 0.427602
Target:  5'- uCGAGCggCgGCAGCGGGCCAcGGagccaucUGCg -3'
miRNA:   3'- -GUUCGaaG-CGUCGCCCGGUuCCa------ACG- -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.