miRNA display CGI


Results 1 - 20 of 27 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
19571 5' -50.1 NC_004686.1 + 11676 0.66 0.936485
Target:  5'- gGGCUUCAAGCccggaGCAUugaaUGUCGGaACCAa -3'
miRNA:   3'- -CCGAGGUUCG-----UGUA----ACGGUUaUGGUg -5'
19571 5' -50.1 NC_004686.1 + 22490 0.66 0.93426
Target:  5'- aGGCUgguacagCCAgucgaugcgguuguAGC-CAUcggUGCCGGUGCCGCc -3'
miRNA:   3'- -CCGA-------GGU--------------UCGuGUA---ACGGUUAUGGUG- -5'
19571 5' -50.1 NC_004686.1 + 19590 0.66 0.930831
Target:  5'- cGGCUCCGggguaGGCGCAU--CC---ACCGCa -3'
miRNA:   3'- -CCGAGGU-----UCGUGUAacGGuuaUGGUG- -5'
19571 5' -50.1 NC_004686.1 + 33500 0.66 0.924872
Target:  5'- uGGCaggCCGAGCACAUggUGCC----CCAg -3'
miRNA:   3'- -CCGa--GGUUCGUGUA--ACGGuuauGGUg -5'
19571 5' -50.1 NC_004686.1 + 26307 0.66 0.924872
Target:  5'- uGGCUgCCGAcaaACAacGCCAAUGCgCACa -3'
miRNA:   3'- -CCGA-GGUUcg-UGUaaCGGUUAUG-GUG- -5'
19571 5' -50.1 NC_004686.1 + 6496 0.66 0.923643
Target:  5'- uGGCUCCugcucguagaucGGCugAcccGCCAGaACCGCa -3'
miRNA:   3'- -CCGAGGu-----------UCGugUaa-CGGUUaUGGUG- -5'
19571 5' -50.1 NC_004686.1 + 39646 0.66 0.91204
Target:  5'- uGCUCCGAccGCACAgUGUCAcgggugaggGUGCgGCa -3'
miRNA:   3'- cCGAGGUU--CGUGUaACGGU---------UAUGgUG- -5'
19571 5' -50.1 NC_004686.1 + 56147 0.66 0.91204
Target:  5'- cGGgUCCAccGGuCGCGggUGCCGA-ACCGCc -3'
miRNA:   3'- -CCgAGGU--UC-GUGUa-ACGGUUaUGGUG- -5'
19571 5' -50.1 NC_004686.1 + 49783 0.67 0.897268
Target:  5'- -cCUCCGAGgGCuUUGUCGAUuuccucgGCCACa -3'
miRNA:   3'- ccGAGGUUCgUGuAACGGUUA-------UGGUG- -5'
19571 5' -50.1 NC_004686.1 + 4213 0.67 0.882783
Target:  5'- cGGCUCCAccGGCAac--GCUug-ACCACc -3'
miRNA:   3'- -CCGAGGU--UCGUguaaCGGuuaUGGUG- -5'
19571 5' -50.1 NC_004686.1 + 9594 0.67 0.882783
Target:  5'- cGUUCCGAcaGCGUUGCCGAUcuucuccCCACg -3'
miRNA:   3'- cCGAGGUUcgUGUAACGGUUAu------GGUG- -5'
19571 5' -50.1 NC_004686.1 + 43810 0.67 0.882783
Target:  5'- cGGC-CCAGGUugcgUGCCGcgACCAa -3'
miRNA:   3'- -CCGaGGUUCGuguaACGGUuaUGGUg -5'
19571 5' -50.1 NC_004686.1 + 54808 0.67 0.874746
Target:  5'- cGGCgcauUCCcggaAGGCGCGUUGCUcGUGauCCACa -3'
miRNA:   3'- -CCG----AGG----UUCGUGUAACGGuUAU--GGUG- -5'
19571 5' -50.1 NC_004686.1 + 55943 0.68 0.849005
Target:  5'- cGCgCCAucAGCACAUgGaCCGAUACCGu -3'
miRNA:   3'- cCGaGGU--UCGUGUAaC-GGUUAUGGUg -5'
19571 5' -50.1 NC_004686.1 + 23318 0.68 0.849005
Target:  5'- cGGUaaauUCCGAGUAgG-UGCCuguUGCCGCa -3'
miRNA:   3'- -CCG----AGGUUCGUgUaACGGuu-AUGGUG- -5'
19571 5' -50.1 NC_004686.1 + 51185 0.68 0.827729
Target:  5'- aGGCugUCCAGGUACA--GCCucgcggcggacgagAAUGCCGCc -3'
miRNA:   3'- -CCG--AGGUUCGUGUaaCGG--------------UUAUGGUG- -5'
19571 5' -50.1 NC_004686.1 + 52700 0.7 0.759438
Target:  5'- cGCUCCAccAGCcaggaguaGUUGCCG-UGCCGCu -3'
miRNA:   3'- cCGAGGU--UCGug------UAACGGUuAUGGUG- -5'
19571 5' -50.1 NC_004686.1 + 21299 0.7 0.748597
Target:  5'- uGGC-CCAGGCACcgcugcUGaCCGAcACCACa -3'
miRNA:   3'- -CCGaGGUUCGUGua----AC-GGUUaUGGUG- -5'
19571 5' -50.1 NC_004686.1 + 13036 0.7 0.748597
Target:  5'- cGGCgcugCCGAGCACccUGCUu---CCACg -3'
miRNA:   3'- -CCGa---GGUUCGUGuaACGGuuauGGUG- -5'
19571 5' -50.1 NC_004686.1 + 26422 0.7 0.748597
Target:  5'- gGGUgggCCAGGCGCAU--UCGAUGCCGa -3'
miRNA:   3'- -CCGa--GGUUCGUGUAacGGUUAUGGUg -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.