miRNA display CGI


Results 1 - 20 of 96 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
28108 3' -61 NC_005887.1 + 3876 1.08 0.000213
Target:  5'- cGGCGGCAGCCCGGCAUACGACGCCAUg -3'
miRNA:   3'- -CCGCCGUCGGGCCGUAUGCUGCGGUA- -5'
28108 3' -61 NC_005887.1 + 32608 0.78 0.049572
Target:  5'- cGCGGUgaaAGCCUGGCAcACGugGCCGg -3'
miRNA:   3'- cCGCCG---UCGGGCCGUaUGCugCGGUa -5'
28108 3' -61 NC_005887.1 + 33840 0.77 0.055623
Target:  5'- uGGUGGaAGCCCGGCAcGCcGCGCCAg -3'
miRNA:   3'- -CCGCCgUCGGGCCGUaUGcUGCGGUa -5'
28108 3' -61 NC_005887.1 + 41353 0.76 0.060453
Target:  5'- cGGCGGCAgcagcgcGCCCGugcGCAggucgACGGCGCCAUu -3'
miRNA:   3'- -CCGCCGU-------CGGGC---CGUa----UGCUGCGGUA- -5'
28108 3' -61 NC_005887.1 + 29878 0.75 0.074047
Target:  5'- uGCGGCAGgCCGaGCGUACGGCGUUu- -3'
miRNA:   3'- cCGCCGUCgGGC-CGUAUGCUGCGGua -5'
28108 3' -61 NC_005887.1 + 23466 0.75 0.076184
Target:  5'- -cCGGaAGCCCGGCAgccgGCGACGCCc- -3'
miRNA:   3'- ccGCCgUCGGGCCGUa---UGCUGCGGua -5'
28108 3' -61 NC_005887.1 + 41597 0.74 0.095526
Target:  5'- aGCGGCGGCCCaGGU--GCGGCgGCCGg -3'
miRNA:   3'- cCGCCGUCGGG-CCGuaUGCUG-CGGUa -5'
28108 3' -61 NC_005887.1 + 4525 0.74 0.097699
Target:  5'- cGCGGCAGCCgGGUcgaacugcgagACGAUGCCGg -3'
miRNA:   3'- cCGCCGUCGGgCCGua---------UGCUGCGGUa -5'
28108 3' -61 NC_005887.1 + 11307 0.74 0.098249
Target:  5'- aGCGGcCGGCUCGGCA-GCGAgCGCCGc -3'
miRNA:   3'- cCGCC-GUCGGGCCGUaUGCU-GCGGUa -5'
28108 3' -61 NC_005887.1 + 25952 0.73 0.101045
Target:  5'- -aCGGUGGCCCGGCA---GACGCCGa -3'
miRNA:   3'- ccGCCGUCGGGCCGUaugCUGCGGUa -5'
28108 3' -61 NC_005887.1 + 6608 0.73 0.109888
Target:  5'- cGGCGaCAGCCCcgugaauucGGCGgggGCGAUGCCGUc -3'
miRNA:   3'- -CCGCcGUCGGG---------CCGUa--UGCUGCGGUA- -5'
28108 3' -61 NC_005887.1 + 18552 0.72 0.126254
Target:  5'- gGGCGGCGGCgCCGGCuucgcggGCGACauGCUc- -3'
miRNA:   3'- -CCGCCGUCG-GGCCGua-----UGCUG--CGGua -5'
28108 3' -61 NC_005887.1 + 799 0.72 0.132316
Target:  5'- uGGCGGCAGCaCCGGUgcugGUACGAgaucagcugguucaCGUCGg -3'
miRNA:   3'- -CCGCCGUCG-GGCCG----UAUGCU--------------GCGGUa -5'
28108 3' -61 NC_005887.1 + 14204 0.72 0.133413
Target:  5'- gGGC-GCGGCCuCGGaCAggGCGGCGCCGc -3'
miRNA:   3'- -CCGcCGUCGG-GCC-GUa-UGCUGCGGUa -5'
28108 3' -61 NC_005887.1 + 17251 0.71 0.144458
Target:  5'- cGGCGGCGucaauaagaucguGCCgGGCGagacgucggGCGGCGCCGc -3'
miRNA:   3'- -CCGCCGU-------------CGGgCCGUa--------UGCUGCGGUa -5'
28108 3' -61 NC_005887.1 + 12272 0.71 0.144853
Target:  5'- -cCGGCGcGCCCGGC--GCGGCGCUGUc -3'
miRNA:   3'- ccGCCGU-CGGGCCGuaUGCUGCGGUA- -5'
28108 3' -61 NC_005887.1 + 13614 0.71 0.148862
Target:  5'- uGCuGGCAGCgCGGCGcGCGGCgGCCGc -3'
miRNA:   3'- cCG-CCGUCGgGCCGUaUGCUG-CGGUa -5'
28108 3' -61 NC_005887.1 + 9276 0.71 0.152971
Target:  5'- -aCGGCGG-UCGGCAcgGCGACGCCGc -3'
miRNA:   3'- ccGCCGUCgGGCCGUa-UGCUGCGGUa -5'
28108 3' -61 NC_005887.1 + 25494 0.71 0.152971
Target:  5'- aGCGGCGGCUCGGacgAUGGCGCgGc -3'
miRNA:   3'- cCGCCGUCGGGCCguaUGCUGCGgUa -5'
28108 3' -61 NC_005887.1 + 2991 0.71 0.157183
Target:  5'- cGGCGcuugcGCAGCuuGGCG-GCGGCGUCGUu -3'
miRNA:   3'- -CCGC-----CGUCGggCCGUaUGCUGCGGUA- -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.