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 + 14018 0.66 0.550891
Target:  5'- gCGUCCgGCgcggcagCGGccggagccucGGGCGCGGGCGc-- -3'
miRNA:   3'- -GCGGGgCGa------GCU----------UCCGUGCCCGUuac -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 + 41639 0.66 0.540548
Target:  5'- uCGCCuCCaGCUCGgcGauGCGGGCAGc- -3'
miRNA:   3'- -GCGG-GG-CGAGCuuCcgUGCCCGUUac -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 + 6754 0.66 0.53027
Target:  5'- gCGCCUCguuguGCUCGu-GGC-CGGGCAcgAUGc -3'
miRNA:   3'- -GCGGGG-----CGAGCuuCCGuGCCCGU--UAC- -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 + 11747 0.66 0.520065
Target:  5'- -aCCCCGgaCUCGAuguAGGCGCcGGCGAUc -3'
miRNA:   3'- gcGGGGC--GAGCU---UCCGUGcCCGUUAc -5'
23862 3' -59.5 NC_005262.1 + 35548 0.66 0.520065
Target:  5'- aGCCgcgaugUCGCUCGccGGCGCGGGaaaGAg- -3'
miRNA:   3'- gCGG------GGCGAGCuuCCGUGCCCg--UUac -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 + 62811 0.66 0.509938
Target:  5'- cCGCCCCGCccgcgcaggUCGccacucGGCAgGGGCugacgGAUGa -3'
miRNA:   3'- -GCGGGGCG---------AGCuu----CCGUgCCCG-----UUAC- -5'
23862 3' -59.5 NC_005262.1 + 53018 0.66 0.499894
Target:  5'- aGCaguaCCGCgCGcccGGCGCGGGCGGa- -3'
miRNA:   3'- gCGg---GGCGaGCuu-CCGUGCCCGUUac -5'
23862 3' -59.5 NC_005262.1 + 54622 0.67 0.489939
Target:  5'- gCGCCgaCCGCcaugcgUGAAGGCGCcGGGUGAUc -3'
miRNA:   3'- -GCGG--GGCGa-----GCUUCCGUG-CCCGUUAc -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 + 59968 0.67 0.480077
Target:  5'- uCG-CCCGCUCGAucAGGCGCGcauGCAc-- -3'
miRNA:   3'- -GCgGGGCGAGCU--UCCGUGCc--CGUuac -5'
23862 3' -59.5 NC_005262.1 + 31997 0.67 0.480077
Target:  5'- gGCCCCGCUCGucaucgagAAGGCcguggaaaaGGccGCGAUGa -3'
miRNA:   3'- gCGGGGCGAGC--------UUCCGug-------CC--CGUUAC- -5'
23862 3' -59.5 NC_005262.1 + 55513 0.67 0.470313
Target:  5'- cCGCCUCGCgagCGA---CGCGGGCAGc- -3'
miRNA:   3'- -GCGGGGCGa--GCUuccGUGCCCGUUac -5'
23862 3' -59.5 NC_005262.1 + 46810 0.67 0.470313
Target:  5'- gCGCUCgGC-CGgcGGCAgcaGGGCAAUa -3'
miRNA:   3'- -GCGGGgCGaGCuuCCGUg--CCCGUUAc -5'
23862 3' -59.5 NC_005262.1 + 36267 0.67 0.470313
Target:  5'- uCGCCCuCG-UCGguGcGCGCGGGCAc-- -3'
miRNA:   3'- -GCGGG-GCgAGCuuC-CGUGCCCGUuac -5'
23862 3' -59.5 NC_005262.1 + 27386 0.67 0.460651
Target:  5'- gCGCCuCCGCgaacgUGGAcuucGGCgACGGGCGAa- -3'
miRNA:   3'- -GCGG-GGCGa----GCUU----CCG-UGCCCGUUac -5'
23862 3' -59.5 NC_005262.1 + 23069 0.67 0.460651
Target:  5'- cCGCCCgUGCUCGAGGGCgucaGCGccgccguauuauGGCcGUGc -3'
miRNA:   3'- -GCGGG-GCGAGCUUCCG----UGC------------CCGuUAC- -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.