miRNA display CGI


Results 1 - 20 of 53 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
23862 3' -59.5 NC_005262.1 + 8 0.68 0.414002
Target:  5'- aGCCCCGaCUCGcGAGaGC-CGgGGCAAUc -3'
miRNA:   3'- gCGGGGC-GAGC-UUC-CGuGC-CCGUUAc -5'
23862 3' -59.5 NC_005262.1 + 895 0.7 0.300096
Target:  5'- gCGCgCCaGCUCGucGGCgcgcugGCGGGUGAUGg -3'
miRNA:   3'- -GCGgGG-CGAGCuuCCG------UGCCCGUUAC- -5'
23862 3' -59.5 NC_005262.1 + 974 0.68 0.404134
Target:  5'- aGCCCCuGC-CGAguggcgaccugcgGGGCG-GGGCGGUGu -3'
miRNA:   3'- gCGGGG-CGaGCU-------------UCCGUgCCCGUUAC- -5'
23862 3' -59.5 NC_005262.1 + 1757 0.7 0.314777
Target:  5'- uGCgCCGCaUCGAGGaggaggaucGCGCGcGGCGAUGa -3'
miRNA:   3'- gCGgGGCG-AGCUUC---------CGUGC-CCGUUAC- -5'
23862 3' -59.5 NC_005262.1 + 2032 0.66 0.53027
Target:  5'- uCGUgCUGCUCGAcgGGGCGCGuaGCGAg- -3'
miRNA:   3'- -GCGgGGCGAGCU--UCCGUGCc-CGUUac -5'
23862 3' -59.5 NC_005262.1 + 4585 0.7 0.312541
Target:  5'- gGCgCUGCUCGGgcgugagcgcccgcAGGaACGGGCGGUGa -3'
miRNA:   3'- gCGgGGCGAGCU--------------UCCgUGCCCGUUAC- -5'
23862 3' -59.5 NC_005262.1 + 5068 0.67 0.489939
Target:  5'- aGgCCCGCggCGgcGGCGCGugcgaccggcucGGCGGUGc -3'
miRNA:   3'- gCgGGGCGa-GCuuCCGUGC------------CCGUUAC- -5'
23862 3' -59.5 NC_005262.1 + 5176 0.72 0.228766
Target:  5'- aCGgCCgGCgUCGcGGGCGCGGGCGcgGc -3'
miRNA:   3'- -GCgGGgCG-AGCuUCCGUGCCCGUuaC- -5'
23862 3' -59.5 NC_005262.1 + 5265 0.66 0.509938
Target:  5'- aCGCCUCGUgcagcaGCACGGGCAGg- -3'
miRNA:   3'- -GCGGGGCGagcuucCGUGCCCGUUac -5'
23862 3' -59.5 NC_005262.1 + 5574 0.68 0.405025
Target:  5'- uGCCCaaGUUCGu-GGUACGGGCGGc- -3'
miRNA:   3'- gCGGGg-CGAGCuuCCGUGCCCGUUac -5'
23862 3' -59.5 NC_005262.1 + 6754 0.66 0.53027
Target:  5'- gCGCCUCguuguGCUCGu-GGC-CGGGCAcgAUGc -3'
miRNA:   3'- -GCGGGG-----CGAGCuuCCGuGCCCGU--UAC- -5'
23862 3' -59.5 NC_005262.1 + 8876 0.67 0.445414
Target:  5'- aCGCCCggcaGCgucaggugcgagccgUCGAAcuGGCGCGGcGCGAUGu -3'
miRNA:   3'- -GCGGGg---CG---------------AGCUU--CCGUGCC-CGUUAC- -5'
23862 3' -59.5 NC_005262.1 + 8904 0.68 0.4231
Target:  5'- aCGgUCCGCUCuuGGGUGCGcGGCGAa- -3'
miRNA:   3'- -GCgGGGCGAGcuUCCGUGC-CCGUUac -5'
23862 3' -59.5 NC_005262.1 + 10843 0.71 0.285256
Target:  5'- cCGCCgCGCUCaGggGGCggcaugagugaggGCGcGGUAAUGg -3'
miRNA:   3'- -GCGGgGCGAG-CuuCCG-------------UGC-CCGUUAC- -5'
23862 3' -59.5 NC_005262.1 + 11092 0.68 0.432317
Target:  5'- gCGgCCCGCUgGcacgcuuGGCG-GGGCAAUGg -3'
miRNA:   3'- -GCgGGGCGAgCuu-----CCGUgCCCGUUAC- -5'
23862 3' -59.5 NC_005262.1 + 11627 0.68 0.405025
Target:  5'- uGCCCCcugcaccaucgGCUCGgcGGCGCcGGCGu-- -3'
miRNA:   3'- gCGGGG-----------CGAGCuuCCGUGcCCGUuac -5'
23862 3' -59.5 NC_005262.1 + 11747 0.66 0.520065
Target:  5'- -aCCCCGgaCUCGAuguAGGCGCcGGCGAUc -3'
miRNA:   3'- gcGGGGC--GAGCU---UCCGUGcCCGUUAc -5'
23862 3' -59.5 NC_005262.1 + 13442 0.66 0.53027
Target:  5'- uGCgCCGCUCGc-GGUcgucGCGGGCGc-- -3'
miRNA:   3'- gCGgGGCGAGCuuCCG----UGCCCGUuac -5'
23862 3' -59.5 NC_005262.1 + 13514 0.66 0.550891
Target:  5'- gGCCgUcacggGCUCGGccGGCGCGGGCGc-- -3'
miRNA:   3'- gCGGgG-----CGAGCUu-CCGUGCCCGUuac -5'
23862 3' -59.5 NC_005262.1 + 14018 0.66 0.550891
Target:  5'- gCGUCCgGCgcggcagCGGccggagccucGGGCGCGGGCGc-- -3'
miRNA:   3'- -GCGGGgCGa------GCU----------UCCGUGCCCGUuac -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.