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
16993 3' -50.3 NC_004333.2 + 11721 0.66 0.909804
Target:  5'- gUGCUGGCGUccUGCGcgaugUCCG-GCAGcCGa -3'
miRNA:   3'- -ACGGCCGUA--ACGUa----AGGUaCGUUuGC- -5'
16993 3' -50.3 NC_004333.2 + 5205 0.66 0.909804
Target:  5'- gGCgCGGCGUcgGCA--CCGUcGCAAACu -3'
miRNA:   3'- aCG-GCCGUAa-CGUaaGGUA-CGUUUGc -5'
16993 3' -50.3 NC_004333.2 + 915 0.66 0.902767
Target:  5'- gGUCGGCAUUGCGcccUCGUaGCGuGCGc -3'
miRNA:   3'- aCGGCCGUAACGUaa-GGUA-CGUuUGC- -5'
16993 3' -50.3 NC_004333.2 + 29122 0.66 0.895427
Target:  5'- aGCCGGCGgacggucaGCAUccgCCAUcGCAucGGCGu -3'
miRNA:   3'- aCGGCCGUaa------CGUAa--GGUA-CGU--UUGC- -5'
16993 3' -50.3 NC_004333.2 + 11238 0.66 0.887789
Target:  5'- uUGCCGGCGcucgagUGCug-CCAgacggcccaaUGCAGGCc -3'
miRNA:   3'- -ACGGCCGUa-----ACGuaaGGU----------ACGUUUGc -5'
16993 3' -50.3 NC_004333.2 + 28950 0.66 0.879857
Target:  5'- aGCCcGUAUUGCucgagcgCCGUGCGgAACGc -3'
miRNA:   3'- aCGGcCGUAACGuaa----GGUACGU-UUGC- -5'
16993 3' -50.3 NC_004333.2 + 5391 0.67 0.863141
Target:  5'- aGCCGGCGUUgaccuguucGCGUUCUucUGCcaucGCGg -3'
miRNA:   3'- aCGGCCGUAA---------CGUAAGGu-ACGuu--UGC- -5'
16993 3' -50.3 NC_004333.2 + 35177 0.67 0.854372
Target:  5'- cGCCGGCAgUUGCAUaaCC-UGC--GCGa -3'
miRNA:   3'- aCGGCCGU-AACGUAa-GGuACGuuUGC- -5'
16993 3' -50.3 NC_004333.2 + 30695 0.67 0.854372
Target:  5'- cGCCGGCGgcgGCAacuucgUCCuggaagcugGCAAGCu -3'
miRNA:   3'- aCGGCCGUaa-CGUa-----AGGua-------CGUUUGc -5'
16993 3' -50.3 NC_004333.2 + 9602 0.67 0.853481
Target:  5'- aGCCGGCGcgGCAUcggCCGguugcgcaccggcUGCcGGCGg -3'
miRNA:   3'- aCGGCCGUaaCGUAa--GGU-------------ACGuUUGC- -5'
16993 3' -50.3 NC_004333.2 + 22241 0.67 0.845342
Target:  5'- cGCCGGCAUcgacgccgcgcGCAauagcuaCGUGCAAGCGc -3'
miRNA:   3'- aCGGCCGUAa----------CGUaag----GUACGUUUGC- -5'
16993 3' -50.3 NC_004333.2 + 7572 0.67 0.836061
Target:  5'- gGUCGGCg--GCAgacCCAUGCGcagGACGu -3'
miRNA:   3'- aCGGCCGuaaCGUaa-GGUACGU---UUGC- -5'
16993 3' -50.3 NC_004333.2 + 22938 0.67 0.826538
Target:  5'- gGCUGGCucgGCAUUUCAaccCGAACGg -3'
miRNA:   3'- aCGGCCGuaaCGUAAGGUac-GUUUGC- -5'
16993 3' -50.3 NC_004333.2 + 39389 0.67 0.826538
Target:  5'- cGCCGGCGcaagGCAUUgCcgGCGAc-- -3'
miRNA:   3'- aCGGCCGUaa--CGUAAgGuaCGUUugc -5'
16993 3' -50.3 NC_004333.2 + 22466 0.68 0.806815
Target:  5'- gGCCGGCGa-GCAagCCAUucucGCGGGCGu -3'
miRNA:   3'- aCGGCCGUaaCGUaaGGUA----CGUUUGC- -5'
16993 3' -50.3 NC_004333.2 + 24524 0.68 0.796638
Target:  5'- gGCCGGCg--GCGUUCCGccucaagGCGAGg- -3'
miRNA:   3'- aCGGCCGuaaCGUAAGGUa------CGUUUgc -5'
16993 3' -50.3 NC_004333.2 + 46246 0.68 0.786269
Target:  5'- cGCCGGU---GCGggCCAgcuggUGCAGACGc -3'
miRNA:   3'- aCGGCCGuaaCGUaaGGU-----ACGUUUGC- -5'
16993 3' -50.3 NC_004333.2 + 18841 0.68 0.775719
Target:  5'- cGCgCGGCAguacGCAguugCCGUGCGcAACGc -3'
miRNA:   3'- aCG-GCCGUaa--CGUaa--GGUACGU-UUGC- -5'
16993 3' -50.3 NC_004333.2 + 18560 0.69 0.766081
Target:  5'- aGCCGGCGcgGCGgcgaauccgaacccgUUCGUGCAacaAACGa -3'
miRNA:   3'- aCGGCCGUaaCGUa--------------AGGUACGU---UUGC- -5'
16993 3' -50.3 NC_004333.2 + 18386 0.69 0.765002
Target:  5'- cGCCGGCAUcaugcucgUGCcgUCCGaaGCGcAACGc -3'
miRNA:   3'- aCGGCCGUA--------ACGuaAGGUa-CGU-UUGC- -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.