miRNA display CGI


Results 1 - 20 of 41 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
23932 3' -58.9 NC_005262.1 + 29153 0.66 0.613559
Target:  5'- aGGCcgagUGGCG-CGCGa-CCAUGCGUc -3'
miRNA:   3'- -CCGca--ACCGCaGCGCcaGGUACGCGc -5'
23932 3' -58.9 NC_005262.1 + 7017 0.66 0.603045
Target:  5'- cGGCGgcuucggUGGaCGUCa-GGUCCuucGCGCGc -3'
miRNA:   3'- -CCGCa------ACC-GCAGcgCCAGGua-CGCGC- -5'
23932 3' -58.9 NC_005262.1 + 21805 0.66 0.592554
Target:  5'- gGGCGUU--CGUCGC-GUUC-UGCGCGg -3'
miRNA:   3'- -CCGCAAccGCAGCGcCAGGuACGCGC- -5'
23932 3' -58.9 NC_005262.1 + 60406 0.66 0.571671
Target:  5'- cGGCGgcaUGGCGcaCGUGGUCgAgauCGCGa -3'
miRNA:   3'- -CCGCa--ACCGCa-GCGCCAGgUac-GCGC- -5'
23932 3' -58.9 NC_005262.1 + 18793 0.66 0.571671
Target:  5'- cGUGUUGGCGUcCGCcG-CCugccGCGCGg -3'
miRNA:   3'- cCGCAACCGCA-GCGcCaGGua--CGCGC- -5'
23932 3' -58.9 NC_005262.1 + 17128 0.66 0.571671
Target:  5'- cGGCG--GGCGUCGgugcCGGcgCCAUGCuGCc -3'
miRNA:   3'- -CCGCaaCCGCAGC----GCCa-GGUACG-CGc -5'
23932 3' -58.9 NC_005262.1 + 17327 0.67 0.55097
Target:  5'- gGGCu---GCGUCGUGG-CCG-GCGCGg -3'
miRNA:   3'- -CCGcaacCGCAGCGCCaGGUaCGCGC- -5'
23932 3' -58.9 NC_005262.1 + 52368 0.67 0.55097
Target:  5'- cGGCGUgucGCGcaccuUCgGCGG-CCcgGCGCGg -3'
miRNA:   3'- -CCGCAac-CGC-----AG-CGCCaGGuaCGCGC- -5'
23932 3' -58.9 NC_005262.1 + 18719 0.67 0.534575
Target:  5'- aGGCGUcaaGGCGcuccucagcuucggCGCGG-CUcgGCGCGu -3'
miRNA:   3'- -CCGCAa--CCGCa-------------GCGCCaGGuaCGCGC- -5'
23932 3' -58.9 NC_005262.1 + 5099 0.67 0.530503
Target:  5'- cGGCGgUGcGCGcC-CGGUucacgaugccugCCAUGCGCGa -3'
miRNA:   3'- -CCGCaAC-CGCaGcGCCA------------GGUACGCGC- -5'
23932 3' -58.9 NC_005262.1 + 46720 0.67 0.530503
Target:  5'- cGCGUcgacgGGCG-CGCcuaucGGcgCCGUGCGCGc -3'
miRNA:   3'- cCGCAa----CCGCaGCG-----CCa-GGUACGCGC- -5'
23932 3' -58.9 NC_005262.1 + 5607 0.67 0.524416
Target:  5'- cGCGgcGGCGUCGauGUUCGcgaccucgcccgaguUGCGCa -3'
miRNA:   3'- cCGCaaCCGCAGCgcCAGGU---------------ACGCGc -5'
23932 3' -58.9 NC_005262.1 + 60127 0.67 0.520373
Target:  5'- gGGCGccaGCGUCGCGGcgaaggCAUGgGCGa -3'
miRNA:   3'- -CCGCaacCGCAGCGCCag----GUACgCGC- -5'
23932 3' -58.9 NC_005262.1 + 10772 0.67 0.500348
Target:  5'- cGUGUacUGGCugGUCGCGG-CCAUGCuGuCGg -3'
miRNA:   3'- cCGCA--ACCG--CAGCGCCaGGUACG-C-GC- -5'
23932 3' -58.9 NC_005262.1 + 56354 0.68 0.490464
Target:  5'- cGGCGUgccccGCGagcagaUCGC-GUUCAUGCGCGa -3'
miRNA:   3'- -CCGCAac---CGC------AGCGcCAGGUACGCGC- -5'
23932 3' -58.9 NC_005262.1 + 38851 0.68 0.480671
Target:  5'- aGCug-GGCGcgccgCGCGG-CCAUGUGCGc -3'
miRNA:   3'- cCGcaaCCGCa----GCGCCaGGUACGCGC- -5'
23932 3' -58.9 NC_005262.1 + 39583 0.68 0.480671
Target:  5'- cGGCGUgccggcgcaGCGUCGCGGcugCCGccucggGCGUGa -3'
miRNA:   3'- -CCGCAac-------CGCAGCGCCa--GGUa-----CGCGC- -5'
23932 3' -58.9 NC_005262.1 + 52309 0.68 0.470975
Target:  5'- aGCuc-GGCGaCGCGGcCCAUGUGCu -3'
miRNA:   3'- cCGcaaCCGCaGCGCCaGGUACGCGc -5'
23932 3' -58.9 NC_005262.1 + 22659 0.68 0.451887
Target:  5'- aGGCGgaaUGGCuucagggCGCGGaCCAgUGCGCa -3'
miRNA:   3'- -CCGCa--ACCGca-----GCGCCaGGU-ACGCGc -5'
23932 3' -58.9 NC_005262.1 + 22891 0.68 0.442503
Target:  5'- cGGCGagGGCGUaguacgGUGGUCgguucuCGUGUGCGg -3'
miRNA:   3'- -CCGCaaCCGCAg-----CGCCAG------GUACGCGC- -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.