miRNA display CGI


Results 1 - 20 of 69 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
30560 3' -60.8 NC_006548.1 + 29827 1.12 0.000107
Target:  5'- cGGCCGCAACCCAGCCGGGCAUGACCCc -3'
miRNA:   3'- -CCGGCGUUGGGUCGGCCCGUACUGGG- -5'
30560 3' -60.8 NC_006548.1 + 33206 0.78 0.048712
Target:  5'- gGGCCGCuGCCCgagcaccggccAGCCccgguauguugucgaGGGCAUGACCUc -3'
miRNA:   3'- -CCGGCGuUGGG-----------UCGG---------------CCCGUACUGGG- -5'
30560 3' -60.8 NC_006548.1 + 30761 0.78 0.051006
Target:  5'- -uCCGCGAUCCcGCCGGGCGcUGGCUCg -3'
miRNA:   3'- ccGGCGUUGGGuCGGCCCGU-ACUGGG- -5'
30560 3' -60.8 NC_006548.1 + 27741 0.76 0.064143
Target:  5'- cGGCCGCGaaagaaACCCcggAGCUGGGCAguuCCCu -3'
miRNA:   3'- -CCGGCGU------UGGG---UCGGCCCGUacuGGG- -5'
30560 3' -60.8 NC_006548.1 + 26259 0.76 0.065999
Target:  5'- uGGCUGCAggagACCCGGCCGGaaacGC-UGACCg -3'
miRNA:   3'- -CCGGCGU----UGGGUCGGCC----CGuACUGGg -5'
30560 3' -60.8 NC_006548.1 + 30900 0.76 0.067907
Target:  5'- cGGCCGCAGCCCAGC-GGGag-GAgcgUCCg -3'
miRNA:   3'- -CCGGCGUUGGGUCGgCCCguaCU---GGG- -5'
30560 3' -60.8 NC_006548.1 + 11678 0.76 0.068685
Target:  5'- cGCCGCAACCCcggcgccgccgcgcGCCGcGCAUGACCa -3'
miRNA:   3'- cCGGCGUUGGGu-------------CGGCcCGUACUGGg -5'
30560 3' -60.8 NC_006548.1 + 28600 0.75 0.078271
Target:  5'- cGCCGCGACCUGGCCGGcGCcgagcagGACUg -3'
miRNA:   3'- cCGGCGUUGGGUCGGCC-CGua-----CUGGg -5'
30560 3' -60.8 NC_006548.1 + 37532 0.75 0.085198
Target:  5'- uGGacaCGcCAGCCCAGCCGuggcGGCAUGuacuCCCa -3'
miRNA:   3'- -CCg--GC-GUUGGGUCGGC----CCGUACu---GGG- -5'
30560 3' -60.8 NC_006548.1 + 1069 0.74 0.100842
Target:  5'- uGUCGaCGACCCAGCCGGcGCAgcucagcaucgcUGACgCCc -3'
miRNA:   3'- cCGGC-GUUGGGUCGGCC-CGU------------ACUG-GG- -5'
30560 3' -60.8 NC_006548.1 + 17175 0.73 0.112737
Target:  5'- cGGCCuGCAaaucaucguuGCCCagacGGCCGGGgGUG-CCCu -3'
miRNA:   3'- -CCGG-CGU----------UGGG----UCGGCCCgUACuGGG- -5'
30560 3' -60.8 NC_006548.1 + 1957 0.72 0.125935
Target:  5'- aGGCCGUGGCUCGGCUuacucaggGGGUGUGACg- -3'
miRNA:   3'- -CCGGCGUUGGGUCGG--------CCCGUACUGgg -5'
30560 3' -60.8 NC_006548.1 + 17027 0.72 0.136758
Target:  5'- cGCCuGCAugCCGG-CGGGCAUGAUg- -3'
miRNA:   3'- cCGG-CGUugGGUCgGCCCGUACUGgg -5'
30560 3' -60.8 NC_006548.1 + 17441 0.72 0.136758
Target:  5'- cGCCGUGGCCuCGGCCuGGGUG-GACUCa -3'
miRNA:   3'- cCGGCGUUGG-GUCGG-CCCGUaCUGGG- -5'
30560 3' -60.8 NC_006548.1 + 36447 0.72 0.139403
Target:  5'- cGGUCGCGACgaucucagcagauaUCGGCCgGGGCcUGACCa -3'
miRNA:   3'- -CCGGCGUUG--------------GGUCGG-CCCGuACUGGg -5'
30560 3' -60.8 NC_006548.1 + 27595 0.71 0.148429
Target:  5'- aGGCCGUAACCgGcgauGCCGGcgaacaGCAgccccugGACCCg -3'
miRNA:   3'- -CCGGCGUUGGgU----CGGCC------CGUa------CUGGG- -5'
30560 3' -60.8 NC_006548.1 + 31259 0.71 0.156707
Target:  5'- uGCCGaAGCCCGGUCGG---UGACCCa -3'
miRNA:   3'- cCGGCgUUGGGUCGGCCcguACUGGG- -5'
30560 3' -60.8 NC_006548.1 + 17438 0.71 0.1654
Target:  5'- aGCCGUccGACCCAGCaGcGGCgAUGGCgCCg -3'
miRNA:   3'- cCGGCG--UUGGGUCGgC-CCG-UACUG-GG- -5'
30560 3' -60.8 NC_006548.1 + 18717 0.71 0.169451
Target:  5'- uGCCGCAgauccucGCCCAGCCGcaGGcCGUGcuGCUCg -3'
miRNA:   3'- cCGGCGU-------UGGGUCGGC--CC-GUAC--UGGG- -5'
30560 3' -60.8 NC_006548.1 + 22156 0.7 0.184093
Target:  5'- cGGCUGaacaucGCUCGGCCgGGGCAgaACCCg -3'
miRNA:   3'- -CCGGCgu----UGGGUCGG-CCCGUacUGGG- -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.