miRNA display CGI


Results 1 - 20 of 21 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
22908 3' -53.9 NC_005137.2 + 474 0.72 0.65906
Target:  5'- -cCGCCGCGGCGGCUgcccAGCgugUUGuACa -3'
miRNA:   3'- gaGUGGUGCCGCCGGuu--UCGa--AAC-UG- -5'
22908 3' -53.9 NC_005137.2 + 769 0.68 0.860414
Target:  5'- -gCACguuUGGCGGCgGAGGCggUGGCa -3'
miRNA:   3'- gaGUGgu-GCCGCCGgUUUCGaaACUG- -5'
22908 3' -53.9 NC_005137.2 + 3546 0.67 0.91252
Target:  5'- -gCACCGguUGGCGGCUAaaaaGagcaagcguacuauuAGCUUUGACu -3'
miRNA:   3'- gaGUGGU--GCCGCCGGU----U---------------UCGAAACUG- -5'
22908 3' -53.9 NC_005137.2 + 15255 0.66 0.922007
Target:  5'- -aCGCCGCGGCGcGCaCGuuGCguugcaccUUGGCg -3'
miRNA:   3'- gaGUGGUGCCGC-CG-GUuuCGa-------AACUG- -5'
22908 3' -53.9 NC_005137.2 + 19075 1.1 0.003121
Target:  5'- gCUCACCACGGCGGCCAAAGCUUUGACu -3'
miRNA:   3'- -GAGUGGUGCCGCCGGUUUCGAAACUG- -5'
22908 3' -53.9 NC_005137.2 + 21586 0.68 0.868212
Target:  5'- --gGCCGCGcauaGGCCGcGGUUUUGACg -3'
miRNA:   3'- gagUGGUGCcg--CCGGUuUCGAAACUG- -5'
22908 3' -53.9 NC_005137.2 + 27078 0.69 0.827092
Target:  5'- uUCACgAccuuguuguguCGGUGGCCAAAGUg--GACg -3'
miRNA:   3'- gAGUGgU-----------GCCGCCGGUUUCGaaaCUG- -5'
22908 3' -53.9 NC_005137.2 + 69195 0.67 0.897076
Target:  5'- -gCGCUuaacgaGGCGGCCAAacAGCUUagucUGGCu -3'
miRNA:   3'- gaGUGGug----CCGCCGGUU--UCGAA----ACUG- -5'
22908 3' -53.9 NC_005137.2 + 86186 0.67 0.903686
Target:  5'- -aCGCCGacaaGGCGGCCGAcGUgUUUGAa -3'
miRNA:   3'- gaGUGGUg---CCGCCGGUUuCG-AAACUg -5'
22908 3' -53.9 NC_005137.2 + 86955 0.66 0.939996
Target:  5'- gCUCAUCAacgcgucugaaaugcCGGCGGCCAaaAAGUUUaaGCa -3'
miRNA:   3'- -GAGUGGU---------------GCCGCCGGU--UUCGAAacUG- -5'
22908 3' -53.9 NC_005137.2 + 97800 0.67 0.897076
Target:  5'- uCUCGCCGCGGUGcGCUcuucGAcGCgcaaUUGACc -3'
miRNA:   3'- -GAGUGGUGCCGC-CGG----UUuCGa---AACUG- -5'
22908 3' -53.9 NC_005137.2 + 100146 0.68 0.860414
Target:  5'- gCUCGCCcacguACgGGCGcGCCGGgucgucAGCUUUGAUu -3'
miRNA:   3'- -GAGUGG-----UG-CCGC-CGGUU------UCGAAACUG- -5'
22908 3' -53.9 NC_005137.2 + 107402 0.66 0.932946
Target:  5'- aUUGCgACGGCGGCCucaaagacugggAAAGCaccGACg -3'
miRNA:   3'- gAGUGgUGCCGCCGG------------UUUCGaaaCUG- -5'
22908 3' -53.9 NC_005137.2 + 107963 0.66 0.938032
Target:  5'- -cCGCCACGGUGaacaccuCCAgcGAGCcgUUGACa -3'
miRNA:   3'- gaGUGGUGCCGCc------GGU--UUCGa-AACUG- -5'
22908 3' -53.9 NC_005137.2 + 111156 0.68 0.851583
Target:  5'- gUCACUggcguaaACgGGCGGCgGAGGCUUUGuguCg -3'
miRNA:   3'- gAGUGG-------UG-CCGCCGgUUUCGAAACu--G- -5'
22908 3' -53.9 NC_005137.2 + 112616 0.72 0.637913
Target:  5'- uCUCGCCcaaaGCGGCGGCaguAGGCgucgUUGAa -3'
miRNA:   3'- -GAGUGG----UGCCGCCGgu-UUCGa---AACUg -5'
22908 3' -53.9 NC_005137.2 + 118169 0.7 0.761843
Target:  5'- --gGCUACGGCcuGGCCGAAaaCUUUGACg -3'
miRNA:   3'- gagUGGUGCCG--CCGGUUUc-GAAACUG- -5'
22908 3' -53.9 NC_005137.2 + 119779 0.67 0.897076
Target:  5'- gCUCACCAaacguguuuuauCGGCgacGGCCGGAGCggcgcccauUUUGAa -3'
miRNA:   3'- -GAGUGGU------------GCCG---CCGGUUUCG---------AAACUg -5'
22908 3' -53.9 NC_005137.2 + 120320 0.66 0.916154
Target:  5'- -aCGCCacgaaACGGUGGCCAAAGUa----- -3'
miRNA:   3'- gaGUGG-----UGCCGCCGGUUUCGaaacug -5'
22908 3' -53.9 NC_005137.2 + 122070 0.67 0.897076
Target:  5'- gUguCCGgguCGGCGGCCGGGucaCUUUGACg -3'
miRNA:   3'- gAguGGU---GCCGCCGGUUUc--GAAACUG- -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.