miRNA display CGI


Results 1 - 20 of 66 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
23982 3' -57 NC_005262.1 + 12981 0.66 0.649914
Target:  5'- cAGCAGGCCGGggcugauGCGCA-CgaGCgucaccGUGCa -3'
miRNA:   3'- -UCGUCCGGCU-------UGCGUaGgaCG------UACGc -5'
23982 3' -57 NC_005262.1 + 47051 0.66 0.640114
Target:  5'- -aCAGGCCGAgauuGCGCuugcuGUCCUGCGa--- -3'
miRNA:   3'- ucGUCCGGCU----UGCG-----UAGGACGUacgc -5'
23982 3' -57 NC_005262.1 + 43835 0.66 0.640114
Target:  5'- cGCGGGCCGGccGCGCG-Cg-GCgGUGCGc -3'
miRNA:   3'- uCGUCCGGCU--UGCGUaGgaCG-UACGC- -5'
23982 3' -57 NC_005262.1 + 28090 0.66 0.640114
Target:  5'- cGGCucGCCGu-CGUucucGUCCUGCAccUGCGa -3'
miRNA:   3'- -UCGucCGGCuuGCG----UAGGACGU--ACGC- -5'
23982 3' -57 NC_005262.1 + 12024 0.66 0.629219
Target:  5'- cGCAaucuGGUCGcGCGCGUCCccgGCAUGgCa -3'
miRNA:   3'- uCGU----CCGGCuUGCGUAGGa--CGUAC-Gc -5'
23982 3' -57 NC_005262.1 + 63030 0.66 0.629219
Target:  5'- cGGCAucGGCaacuGGCGCAagUCCaGCAUGCGc -3'
miRNA:   3'- -UCGU--CCGgc--UUGCGU--AGGaCGUACGC- -5'
23982 3' -57 NC_005262.1 + 49885 0.66 0.629219
Target:  5'- -uCGGGCCGGACggugcagggGCGUCCggcgcgGCA-GCGg -3'
miRNA:   3'- ucGUCCGGCUUG---------CGUAGGa-----CGUaCGC- -5'
23982 3' -57 NC_005262.1 + 49681 0.66 0.618326
Target:  5'- cGC-GGCCGAGCGaCAcauUCUUGUcgGCc -3'
miRNA:   3'- uCGuCCGGCUUGC-GU---AGGACGuaCGc -5'
23982 3' -57 NC_005262.1 + 30770 0.66 0.618326
Target:  5'- aGGC-GGUCGAGCGCcGUCCaGCGUccGCu -3'
miRNA:   3'- -UCGuCCGGCUUGCG-UAGGaCGUA--CGc -5'
23982 3' -57 NC_005262.1 + 28714 0.66 0.618326
Target:  5'- cGaCAGGCgcuUGuucACGuCGUCCUGCAUGCc -3'
miRNA:   3'- uC-GUCCG---GCu--UGC-GUAGGACGUACGc -5'
23982 3' -57 NC_005262.1 + 57711 0.66 0.618326
Target:  5'- cGGUAGGCCGccacGACGCGcgCC-GCAUGa- -3'
miRNA:   3'- -UCGUCCGGC----UUGCGUa-GGaCGUACgc -5'
23982 3' -57 NC_005262.1 + 55737 0.66 0.618326
Target:  5'- cGGCGuGCCGGACGCggCCacgaGCGcGCGg -3'
miRNA:   3'- -UCGUcCGGCUUGCGuaGGa---CGUaCGC- -5'
23982 3' -57 NC_005262.1 + 49733 0.66 0.607446
Target:  5'- cGGC-GGCCGAAgcCGCA-CCgacGCcgGCGg -3'
miRNA:   3'- -UCGuCCGGCUU--GCGUaGGa--CGuaCGC- -5'
23982 3' -57 NC_005262.1 + 40958 0.67 0.596586
Target:  5'- uGCGGuGCCGcuGCcgGCAUUUUGCGUGCu -3'
miRNA:   3'- uCGUC-CGGCu-UG--CGUAGGACGUACGc -5'
23982 3' -57 NC_005262.1 + 29319 0.67 0.596586
Target:  5'- gAGCAGGUCGAgcaucgucaGCGCGaucUCCgGCG-GCa -3'
miRNA:   3'- -UCGUCCGGCU---------UGCGU---AGGaCGUaCGc -5'
23982 3' -57 NC_005262.1 + 32294 0.67 0.596586
Target:  5'- cGCGGGCgCGAACGUcgaggCagcGCGUGCGc -3'
miRNA:   3'- uCGUCCG-GCUUGCGua---Gga-CGUACGC- -5'
23982 3' -57 NC_005262.1 + 25020 0.67 0.585756
Target:  5'- cGCGcGGCCauguGCGCAUCCcGcCAUGCc -3'
miRNA:   3'- uCGU-CCGGcu--UGCGUAGGaC-GUACGc -5'
23982 3' -57 NC_005262.1 + 1163 0.67 0.585756
Target:  5'- cGCGGGCUu-GC-CAUCCUGCgcggaagcccaGUGCGa -3'
miRNA:   3'- uCGUCCGGcuUGcGUAGGACG-----------UACGC- -5'
23982 3' -57 NC_005262.1 + 7244 0.67 0.574964
Target:  5'- cGGCAugcGGCCGggUGUuucgCCUGUuugGCGu -3'
miRNA:   3'- -UCGU---CCGGCuuGCGua--GGACGua-CGC- -5'
23982 3' -57 NC_005262.1 + 16997 0.67 0.564217
Target:  5'- cGCcGGCCGAGCGCGcgCUcGuCGUGCu -3'
miRNA:   3'- uCGuCCGGCUUGCGUa-GGaC-GUACGc -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.