miRNA display CGI


Results 1 - 20 of 55 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
12194 3' -54.7 NC_003309.1 + 4689 0.65 0.782041
Target:  5'- uCGCGGcCGC-GCGAGCCgaaacGcuacggcgcgcauUCGCGCCu -3'
miRNA:   3'- cGUGCC-GCGuUGCUUGGa----C-------------AGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 27165 0.66 0.77306
Target:  5'- --cCGGCGCGccgGCGuuGACCgUGcCGCGCUg -3'
miRNA:   3'- cguGCCGCGU---UGC--UUGG-ACaGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 11300 0.66 0.77306
Target:  5'- cGgACGGCGCAuc--GCCaaacGUCGgCACCa -3'
miRNA:   3'- -CgUGCCGCGUugcuUGGa---CAGC-GUGG- -5'
12194 3' -54.7 NC_003309.1 + 27926 0.66 0.762945
Target:  5'- gGCAC-GCGCAAUuGAUCcGUCGUugCu -3'
miRNA:   3'- -CGUGcCGCGUUGcUUGGaCAGCGugG- -5'
12194 3' -54.7 NC_003309.1 + 52943 0.66 0.752696
Target:  5'- uGCACGGCuuCAuCGGGC--GUCGUGCCa -3'
miRNA:   3'- -CGUGCCGc-GUuGCUUGgaCAGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 17293 0.66 0.752696
Target:  5'- uCGCGcGCGCAAuCGAAUgcagaCUGUCGgGCg -3'
miRNA:   3'- cGUGC-CGCGUU-GCUUG-----GACAGCgUGg -5'
12194 3' -54.7 NC_003309.1 + 16298 0.66 0.742324
Target:  5'- aCGCcGCGCucAGCGAgauACCaGUCGCGCa -3'
miRNA:   3'- cGUGcCGCG--UUGCU---UGGaCAGCGUGg -5'
12194 3' -54.7 NC_003309.1 + 29437 0.66 0.731842
Target:  5'- gGCAUGGaaaGCGgcccaaagcGCGccAACCUGUUGCAUUu -3'
miRNA:   3'- -CGUGCCg--CGU---------UGC--UUGGACAGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 27207 0.66 0.731842
Target:  5'- -aGCGGCGCAGCcacgcuGCCguugauUCGCGCg -3'
miRNA:   3'- cgUGCCGCGUUGcu----UGGac----AGCGUGg -5'
12194 3' -54.7 NC_003309.1 + 30146 0.66 0.731842
Target:  5'- cGgACGGCGCAGgGGAUaUG-CGC-CCa -3'
miRNA:   3'- -CgUGCCGCGUUgCUUGgACaGCGuGG- -5'
12194 3' -54.7 NC_003309.1 + 19915 0.67 0.721261
Target:  5'- cCGCGGCGCucagcagguuCGAGCUcGaUCGCugCu -3'
miRNA:   3'- cGUGCCGCGuu--------GCUUGGaC-AGCGugG- -5'
12194 3' -54.7 NC_003309.1 + 1343 0.67 0.710591
Target:  5'- aGCACGGCcCcuCGAugU--UCGCGCCc -3'
miRNA:   3'- -CGUGCCGcGuuGCUugGacAGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 17779 0.67 0.710591
Target:  5'- aUACGGCGCAcACGGAUCaGccagccguuuuUCGCGCg -3'
miRNA:   3'- cGUGCCGCGU-UGCUUGGaC-----------AGCGUGg -5'
12194 3' -54.7 NC_003309.1 + 11759 0.67 0.700922
Target:  5'- cGCcCGGCGaucagccccgccauGCGGACCUGcgcgucguUCGCGCUc -3'
miRNA:   3'- -CGuGCCGCgu------------UGCUUGGAC--------AGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 31701 0.67 0.699845
Target:  5'- gGCuCGGCGCGACGAucgugaaucagGCCgagGcCG-ACCg -3'
miRNA:   3'- -CGuGCCGCGUUGCU-----------UGGa--CaGCgUGG- -5'
12194 3' -54.7 NC_003309.1 + 37926 0.67 0.699845
Target:  5'- aGCGCGGCcuuuCGGCGGggcgGCCcGUaugCGCGCCc -3'
miRNA:   3'- -CGUGCCGc---GUUGCU----UGGaCA---GCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 16203 0.67 0.678167
Target:  5'- gGC-CGGCGCGAacuCGcACCaGUCGUcgacGCCg -3'
miRNA:   3'- -CGuGCCGCGUU---GCuUGGaCAGCG----UGG- -5'
12194 3' -54.7 NC_003309.1 + 9100 0.67 0.678167
Target:  5'- aGCuCGGCG-GACGAcAUCUGcUCGCGCa -3'
miRNA:   3'- -CGuGCCGCgUUGCU-UGGAC-AGCGUGg -5'
12194 3' -54.7 NC_003309.1 + 27266 0.67 0.678167
Target:  5'- aCGCGGCGUuuUGAgaaucgcaGCCU-UCGCACUg -3'
miRNA:   3'- cGUGCCGCGuuGCU--------UGGAcAGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 11990 0.68 0.667257
Target:  5'- uGCcCGcGCGCGGC-AGCCgcgGcgCGCGCCg -3'
miRNA:   3'- -CGuGC-CGCGUUGcUUGGa--Ca-GCGUGG- -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.