miRNA display CGI


Results 1 - 20 of 31 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
22721 3' -59.8 NC_005091.1 + 8596 0.66 0.53353
Target:  5'- gGGCCGcagcccGGAUGCUcgaaCGcGUGCGCCCa -3'
miRNA:   3'- -CCGGCc-----CUUGCGAacg-GC-CACGUGGG- -5'
22721 3' -59.8 NC_005091.1 + 30293 0.66 0.529448
Target:  5'- cGUCGGugaaaucGAACgGCUUGcCCGGUGCGgcgugaacgaucuuCCCg -3'
miRNA:   3'- cCGGCC-------CUUG-CGAAC-GGCCACGU--------------GGG- -5'
22721 3' -59.8 NC_005091.1 + 35747 0.66 0.50321
Target:  5'- aGCCGGGGcauccgcgcACGCgaGUCGGc-UACCCg -3'
miRNA:   3'- cCGGCCCU---------UGCGaaCGGCCacGUGGG- -5'
22721 3' -59.8 NC_005091.1 + 31282 0.66 0.50321
Target:  5'- aGGCCGgacGGAACGuCUUcGUCG-UGUAUCCa -3'
miRNA:   3'- -CCGGC---CCUUGC-GAA-CGGCcACGUGGG- -5'
22721 3' -59.8 NC_005091.1 + 15386 0.66 0.483419
Target:  5'- cGGCaucgcaGGGGaaguuugucaauGCGUcugUUGUCGGUgaaGCGCCCa -3'
miRNA:   3'- -CCGg-----CCCU------------UGCG---AACGGCCA---CGUGGG- -5'
22721 3' -59.8 NC_005091.1 + 6835 0.67 0.473664
Target:  5'- -aCCGGGAcuucCGCgaccgUGCCGG-GCugCUu -3'
miRNA:   3'- ccGGCCCUu---GCGa----ACGGCCaCGugGG- -5'
22721 3' -59.8 NC_005091.1 + 15855 0.67 0.464009
Target:  5'- -aCCGGGGGCGUcgGCaUGcGUGUugCCg -3'
miRNA:   3'- ccGGCCCUUGCGaaCG-GC-CACGugGG- -5'
22721 3' -59.8 NC_005091.1 + 54994 0.67 0.445015
Target:  5'- cGGCCGGGcg-GCccGCCGGUau-CCCg -3'
miRNA:   3'- -CCGGCCCuugCGaaCGGCCAcguGGG- -5'
22721 3' -59.8 NC_005091.1 + 53654 0.67 0.445015
Target:  5'- cGCCGGGGuuGCGCUgGCaauGGUGCGa-- -3'
miRNA:   3'- cCGGCCCU--UGCGAaCGg--CCACGUggg -5'
22721 3' -59.8 NC_005091.1 + 21698 0.67 0.435682
Target:  5'- cGCCGGucGAucCGCUUGCgGGggaGUAUCCa -3'
miRNA:   3'- cCGGCC--CUu-GCGAACGgCCa--CGUGGG- -5'
22721 3' -59.8 NC_005091.1 + 16107 0.67 0.426464
Target:  5'- cGGaUCGGGGACGag-GCCaGccgcaugagaUGCACCCg -3'
miRNA:   3'- -CC-GGCCCUUGCgaaCGGcC----------ACGUGGG- -5'
22721 3' -59.8 NC_005091.1 + 45328 0.67 0.426464
Target:  5'- -uCCGGGcgcAACGCgcgGCCGGUagacgacagaGCGCCg -3'
miRNA:   3'- ccGGCCC---UUGCGaa-CGGCCA----------CGUGGg -5'
22721 3' -59.8 NC_005091.1 + 32104 0.68 0.417362
Target:  5'- cGGCCGGGuccGCGCcgacuuCCGGguUGCugCUg -3'
miRNA:   3'- -CCGGCCCu--UGCGaac---GGCC--ACGugGG- -5'
22721 3' -59.8 NC_005091.1 + 51345 0.68 0.417362
Target:  5'- --gCGcGGAACGcCUUGCgCGGguucgugauuUGCGCCCg -3'
miRNA:   3'- ccgGC-CCUUGC-GAACG-GCC----------ACGUGGG- -5'
22721 3' -59.8 NC_005091.1 + 17927 0.68 0.40838
Target:  5'- cGGCCGauagcGGAACGUUUGUCGccgugGCGCgCa -3'
miRNA:   3'- -CCGGC-----CCUUGCGAACGGCca---CGUGgG- -5'
22721 3' -59.8 NC_005091.1 + 34655 0.69 0.357107
Target:  5'- cGCCGGGGaugACGUUgaUGUCGG-GCAUCg -3'
miRNA:   3'- cCGGCCCU---UGCGA--ACGGCCaCGUGGg -5'
22721 3' -59.8 NC_005091.1 + 43723 0.69 0.34105
Target:  5'- aGGuCCGGGcauuucuCGCUUgGCagaaaGGUGCGCCg -3'
miRNA:   3'- -CC-GGCCCuu-----GCGAA-CGg----CCACGUGGg -5'
22721 3' -59.8 NC_005091.1 + 53174 0.7 0.317957
Target:  5'- cGCgCGGGcGCGagcCUU-CCGGUGCAUCCg -3'
miRNA:   3'- cCG-GCCCuUGC---GAAcGGCCACGUGGG- -5'
22721 3' -59.8 NC_005091.1 + 30244 0.7 0.317957
Target:  5'- aGGCCGGG-GCGUcgaaGCCGGcgaaGC-CCCg -3'
miRNA:   3'- -CCGGCCCuUGCGaa--CGGCCa---CGuGGG- -5'
22721 3' -59.8 NC_005091.1 + 27423 0.7 0.314969
Target:  5'- cGGCUGGGGGCGCU--CCGGgggaucacgaaagGCuugauCCCg -3'
miRNA:   3'- -CCGGCCCUUGCGAacGGCCa------------CGu----GGG- -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.