miRNA display CGI


Results 1 - 20 of 38 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
30504 3' -56.5 NC_006548.1 + 377 0.7 0.307726
Target:  5'- cGGCGCUgggCCGGCaucacguuuguuuUUCCGGuCAaggaugagcUGGCu -3'
miRNA:   3'- uCCGCGAaa-GGCCG-------------AAGGUC-GU---------ACCG- -5'
30504 3' -56.5 NC_006548.1 + 2482 0.72 0.237483
Target:  5'- uGGGCGa----CGuGCUggCCAGCAUGGCu -3'
miRNA:   3'- -UCCGCgaaagGC-CGAa-GGUCGUACCG- -5'
30504 3' -56.5 NC_006548.1 + 2876 0.66 0.48431
Target:  5'- cAGGCGCUcgUCgaaGGCgauguugUCGGCcAUGGCc -3'
miRNA:   3'- -UCCGCGAa-AGg--CCGaa-----GGUCG-UACCG- -5'
30504 3' -56.5 NC_006548.1 + 3965 0.66 0.538137
Target:  5'- cAGG-GCUUcCCGGCagUCCuGCucgcucUGGCg -3'
miRNA:   3'- -UCCgCGAAaGGCCGa-AGGuCGu-----ACCG- -5'
30504 3' -56.5 NC_006548.1 + 4259 0.66 0.52719
Target:  5'- uGGCGUUguugaCGGCaUCCAgGCAUcgGGCc -3'
miRNA:   3'- uCCGCGAaag--GCCGaAGGU-CGUA--CCG- -5'
30504 3' -56.5 NC_006548.1 + 4762 0.69 0.332765
Target:  5'- cAGGCGCUUca-GGUgcUUgAGCGUGGCg -3'
miRNA:   3'- -UCCGCGAAaggCCGa-AGgUCGUACCG- -5'
30504 3' -56.5 NC_006548.1 + 4824 0.66 0.494881
Target:  5'- -cGUGCUUgaagCCGGC----GGCAUGGCu -3'
miRNA:   3'- ucCGCGAAa---GGCCGaaggUCGUACCG- -5'
30504 3' -56.5 NC_006548.1 + 5635 0.66 0.52719
Target:  5'- -uGCGCaagCCGGC--CCGGCcUGGCc -3'
miRNA:   3'- ucCGCGaaaGGCCGaaGGUCGuACCG- -5'
30504 3' -56.5 NC_006548.1 + 8041 1.11 0.000274
Target:  5'- cAGGCGCUUUCCGGCUUCCAGCAUGGCu -3'
miRNA:   3'- -UCCGCGAAAGGCCGAAGGUCGUACCG- -5'
30504 3' -56.5 NC_006548.1 + 8199 0.71 0.248514
Target:  5'- cGGCGCUauccagUUCCGGCagcucuacugcggaUUUCGGUuugGUGGCa -3'
miRNA:   3'- uCCGCGA------AAGGCCG--------------AAGGUCG---UACCG- -5'
30504 3' -56.5 NC_006548.1 + 8757 0.68 0.385363
Target:  5'- gGGGCGCUc-CUGGCuUUCCAuGCc-GGCa -3'
miRNA:   3'- -UCCGCGAaaGGCCG-AAGGU-CGuaCCG- -5'
30504 3' -56.5 NC_006548.1 + 11955 0.66 0.538137
Target:  5'- cGGCGCag-CCaGGCaccuacgaccUCCAGguUGGCc -3'
miRNA:   3'- uCCGCGaaaGG-CCGa---------AGGUCguACCG- -5'
30504 3' -56.5 NC_006548.1 + 12824 0.66 0.48431
Target:  5'- -cGCGCgag-CGGCgcgguaagUCCGGUGUGGCu -3'
miRNA:   3'- ucCGCGaaagGCCGa-------AGGUCGUACCG- -5'
30504 3' -56.5 NC_006548.1 + 14390 0.74 0.152659
Target:  5'- uGGGCaGCUcgCCGGCUUC-GGCcUGGCu -3'
miRNA:   3'- -UCCG-CGAaaGGCCGAAGgUCGuACCG- -5'
30504 3' -56.5 NC_006548.1 + 14475 0.68 0.376224
Target:  5'- gAGGCGCUga-CGGCgaugaUCCAGUccGaGCu -3'
miRNA:   3'- -UCCGCGAaagGCCGa----AGGUCGuaC-CG- -5'
30504 3' -56.5 NC_006548.1 + 16059 0.76 0.114628
Target:  5'- uGGGCGCUgggUCUGGCgauccaugcugcUUCCGGCcUGGUc -3'
miRNA:   3'- -UCCGCGAa--AGGCCG------------AAGGUCGuACCG- -5'
30504 3' -56.5 NC_006548.1 + 17052 0.71 0.250504
Target:  5'- cGGaGCGC---CCGGCUUCCAGCA--GCu -3'
miRNA:   3'- -UC-CGCGaaaGGCCGAAGGUCGUacCG- -5'
30504 3' -56.5 NC_006548.1 + 18248 0.66 0.516327
Target:  5'- uAGGCGCUgacugagcaCUGGCauccCCAGCcauugGGCg -3'
miRNA:   3'- -UCCGCGAaa-------GGCCGaa--GGUCGua---CCG- -5'
30504 3' -56.5 NC_006548.1 + 21537 0.67 0.423354
Target:  5'- uGGaGCGCUccUUCaGGCUaCCGGCAgaacGGCc -3'
miRNA:   3'- -UC-CGCGA--AAGgCCGAaGGUCGUa---CCG- -5'
30504 3' -56.5 NC_006548.1 + 22752 0.66 0.494881
Target:  5'- uGGCaGCga--CGaGCUgcucgaucgCCAGCGUGGCg -3'
miRNA:   3'- uCCG-CGaaagGC-CGAa--------GGUCGUACCG- -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.