miRNA display CGI


Results 1 - 20 of 121 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
12929 3' -59.1 NC_003387.1 + 23511 1.09 0.0005
Target:  5'- cGGCCAACCGCGCCGACCCCGAAUCGUu -3'
miRNA:   3'- -CCGGUUGGCGCGGCUGGGGCUUAGCA- -5'
12929 3' -59.1 NC_003387.1 + 42753 0.8 0.068397
Target:  5'- cGGaUCGGCUGCGCUGguGCCCCGAGUCGg -3'
miRNA:   3'- -CC-GGUUGGCGCGGC--UGGGGCUUAGCa -5'
12929 3' -59.1 NC_003387.1 + 32013 0.79 0.077757
Target:  5'- aGGCCGcucucgaaucguuCCGCGUCGcCCCCGAGUCGg -3'
miRNA:   3'- -CCGGUu------------GGCGCGGCuGGGGCUUAGCa -5'
12929 3' -59.1 NC_003387.1 + 11404 0.78 0.095432
Target:  5'- cGCUGGCCGCGaUCGGCCCCGAggugcuGUCGUc -3'
miRNA:   3'- cCGGUUGGCGC-GGCUGGGGCU------UAGCA- -5'
12929 3' -59.1 NC_003387.1 + 27687 0.76 0.122052
Target:  5'- uGGCgCGaguGCUGCGCCGACCCCGAc---- -3'
miRNA:   3'- -CCG-GU---UGGCGCGGCUGGGGCUuagca -5'
12929 3' -59.1 NC_003387.1 + 25577 0.75 0.135979
Target:  5'- -cCCGGCgGCGCCGACCCCGg--CGg -3'
miRNA:   3'- ccGGUUGgCGCGGCUGGGGCuuaGCa -5'
12929 3' -59.1 NC_003387.1 + 8334 0.75 0.135979
Target:  5'- cGGCCGACCuCGaCGACCCCGAcgUGc -3'
miRNA:   3'- -CCGGUUGGcGCgGCUGGGGCUuaGCa -5'
12929 3' -59.1 NC_003387.1 + 16988 0.75 0.151354
Target:  5'- gGGCgGGCUGCGUcauCGACCCCGAG-CGg -3'
miRNA:   3'- -CCGgUUGGCGCG---GCUGGGGCUUaGCa -5'
12929 3' -59.1 NC_003387.1 + 22467 0.75 0.155437
Target:  5'- -cCCGACCccgGCGCCGACCCCGA--CGa -3'
miRNA:   3'- ccGGUUGG---CGCGGCUGGGGCUuaGCa -5'
12929 3' -59.1 NC_003387.1 + 8325 0.74 0.165646
Target:  5'- cGUCAGCCGCggcgagcuucgccucGUCGACCaCCGggUCGUc -3'
miRNA:   3'- cCGGUUGGCG---------------CGGCUGG-GGCuuAGCA- -5'
12929 3' -59.1 NC_003387.1 + 17601 0.74 0.168291
Target:  5'- uGGCC-GCCGCuugagcaggccGCCGACCUCGAAcCGUu -3'
miRNA:   3'- -CCGGuUGGCG-----------CGGCUGGGGCUUaGCA- -5'
12929 3' -59.1 NC_003387.1 + 30569 0.74 0.168291
Target:  5'- cGGCCggUaCGCGCCGugCCgCGAGUgCGg -3'
miRNA:   3'- -CCGGuuG-GCGCGGCugGG-GCUUA-GCa -5'
12929 3' -59.1 NC_003387.1 + 20551 0.74 0.172783
Target:  5'- cGUCGGCUGCGCCGauaacGCCCCGGugggCGUg -3'
miRNA:   3'- cCGGUUGGCGCGGC-----UGGGGCUua--GCA- -5'
12929 3' -59.1 NC_003387.1 + 5772 0.74 0.182089
Target:  5'- -aCCGGCCGCGCUcGCCgCGGAUCGa -3'
miRNA:   3'- ccGGUUGGCGCGGcUGGgGCUUAGCa -5'
12929 3' -59.1 NC_003387.1 + 22954 0.74 0.182089
Target:  5'- aGCUGACCGCGUgGggcGCCCCGGucAUCGUg -3'
miRNA:   3'- cCGGUUGGCGCGgC---UGGGGCU--UAGCA- -5'
12929 3' -59.1 NC_003387.1 + 25074 0.73 0.186907
Target:  5'- uGCC-GCCGcCGuuGACCCaCGAGUCGa -3'
miRNA:   3'- cCGGuUGGC-GCggCUGGG-GCUUAGCa -5'
12929 3' -59.1 NC_003387.1 + 19999 0.73 0.191836
Target:  5'- aGGCC-ACCGCGCCGugcgccgugaaGCCCUGuGUCa- -3'
miRNA:   3'- -CCGGuUGGCGCGGC-----------UGGGGCuUAGca -5'
12929 3' -59.1 NC_003387.1 + 45385 0.72 0.218221
Target:  5'- cGGUUAGCUGCGcCCGGCcgCCCGAgccgAUCGUg -3'
miRNA:   3'- -CCGGUUGGCGC-GGCUG--GGGCU----UAGCA- -5'
12929 3' -59.1 NC_003387.1 + 43002 0.72 0.218221
Target:  5'- cGCCGACCcguacGCGCUGAacaCCCCGAgcgguGUCGUc -3'
miRNA:   3'- cCGGUUGG-----CGCGGCU---GGGGCU-----UAGCA- -5'
12929 3' -59.1 NC_003387.1 + 27556 0.72 0.223857
Target:  5'- gGGCC-ACCGCGCCGAgccgaaCCUGcGUCGc -3'
miRNA:   3'- -CCGGuUGGCGCGGCUg-----GGGCuUAGCa -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.