miRNA display CGI


Results 1 - 20 of 24 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
20754 3' -55.6 NC_004688.1 + 88361 0.66 0.837159
Target:  5'- aUcgGCCGCCgCCGAUcCCCA--GCCc- -3'
miRNA:   3'- -AuaCGGUGG-GGCUAuGGGUuaCGGua -5'
20754 3' -55.6 NC_004688.1 + 56329 0.66 0.828432
Target:  5'- cAUGUugucgagaaaCAUCCCGAUAUCCGAgucGCCGg -3'
miRNA:   3'- aUACG----------GUGGGGCUAUGGGUUa--CGGUa -5'
20754 3' -55.6 NC_004688.1 + 105512 0.66 0.828432
Target:  5'- --gGCCGgCCCGAUgaACCgCAAgcgcGCCAUg -3'
miRNA:   3'- auaCGGUgGGGCUA--UGG-GUUa---CGGUA- -5'
20754 3' -55.6 NC_004688.1 + 81228 0.66 0.819509
Target:  5'- gAUGCCGCCgaaGAUuuucuGCCCAccGCCGUu -3'
miRNA:   3'- aUACGGUGGgg-CUA-----UGGGUuaCGGUA- -5'
20754 3' -55.6 NC_004688.1 + 30749 0.66 0.819509
Target:  5'- --gGCCACCCCGGUGUCgGGguugaaGCCGUu -3'
miRNA:   3'- auaCGGUGGGGCUAUGGgUUa-----CGGUA- -5'
20754 3' -55.6 NC_004688.1 + 42260 0.66 0.804846
Target:  5'- -uUGUUGCCCgGGUaaagcaccgaugcauACCCGGUGCCGc -3'
miRNA:   3'- auACGGUGGGgCUA---------------UGGGUUACGGUa -5'
20754 3' -55.6 NC_004688.1 + 1799 0.66 0.80111
Target:  5'- --cGCCuCCCUGAaGCCCcg-GCCAa -3'
miRNA:   3'- auaCGGuGGGGCUaUGGGuuaCGGUa -5'
20754 3' -55.6 NC_004688.1 + 3928 0.66 0.80111
Target:  5'- --cGCCAaCCUCGGUggcgaGCCCAuUGUCAUa -3'
miRNA:   3'- auaCGGU-GGGGCUA-----UGGGUuACGGUA- -5'
20754 3' -55.6 NC_004688.1 + 53428 0.66 0.791653
Target:  5'- cGUGCCGCCCCGGgguCCUGuucUGCa-- -3'
miRNA:   3'- aUACGGUGGGGCUau-GGGUu--ACGgua -5'
20754 3' -55.6 NC_004688.1 + 93938 0.67 0.782038
Target:  5'- gUGUGCuCAUCCCGGUAgaucCUCAGcGCCAa -3'
miRNA:   3'- -AUACG-GUGGGGCUAU----GGGUUaCGGUa -5'
20754 3' -55.6 NC_004688.1 + 14619 0.67 0.782038
Target:  5'- cAUGCCcUCCCGGUGCUCAGgcuuaacuccGCCGa -3'
miRNA:   3'- aUACGGuGGGGCUAUGGGUUa---------CGGUa -5'
20754 3' -55.6 NC_004688.1 + 57743 0.67 0.772275
Target:  5'- --cGCCACCCCuc-GCCCAgGUGCUc- -3'
miRNA:   3'- auaCGGUGGGGcuaUGGGU-UACGGua -5'
20754 3' -55.6 NC_004688.1 + 30688 0.67 0.762374
Target:  5'- -uUGgCGCCaUCGAUAgUCAAUGCCAUa -3'
miRNA:   3'- auACgGUGG-GGCUAUgGGUUACGGUA- -5'
20754 3' -55.6 NC_004688.1 + 17320 0.67 0.742202
Target:  5'- aGUGCgCGCCCuCGAUG-CgGAUGCCGg -3'
miRNA:   3'- aUACG-GUGGG-GCUAUgGgUUACGGUa -5'
20754 3' -55.6 NC_004688.1 + 1331 0.67 0.742202
Target:  5'- gUAUGCCuaGCCCCGAgagACgaaCCAgcaguuGUGCCAg -3'
miRNA:   3'- -AUACGG--UGGGGCUa--UG---GGU------UACGGUa -5'
20754 3' -55.6 NC_004688.1 + 55719 0.67 0.739138
Target:  5'- gGUGCCGCCCaCGcagcggcuggcggcGUACucaaaCCAGUGCCGc -3'
miRNA:   3'- aUACGGUGGG-GC--------------UAUG-----GGUUACGGUa -5'
20754 3' -55.6 NC_004688.1 + 29405 0.68 0.721606
Target:  5'- --cGCCugcaggcggaauGCCUgGGUGCCCAAUaGCCAUu -3'
miRNA:   3'- auaCGG------------UGGGgCUAUGGGUUA-CGGUA- -5'
20754 3' -55.6 NC_004688.1 + 34421 0.68 0.711177
Target:  5'- cGUGCCGCCCaCGGUG----GUGCCAUa -3'
miRNA:   3'- aUACGGUGGG-GCUAUggguUACGGUA- -5'
20754 3' -55.6 NC_004688.1 + 79077 0.68 0.711177
Target:  5'- gGUGcCCGCCCCGAccGCCUcc-GCCAUc -3'
miRNA:   3'- aUAC-GGUGGGGCUa-UGGGuuaCGGUA- -5'
20754 3' -55.6 NC_004688.1 + 73299 0.68 0.690106
Target:  5'- --aGCCGCCgCCGAgACCCAagaacggggaucAUGCCc- -3'
miRNA:   3'- auaCGGUGG-GGCUaUGGGU------------UACGGua -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.