miRNA display CGI


Results 1 - 20 of 44 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
25558 5' -59.5 NC_005337.1 + 128301 0.66 0.748692
Target:  5'- -gCGCCUggcGCCGUCuGCUcgcgcGCGGCgCGAGc -3'
miRNA:   3'- gaGCGGA---CGGCAG-CGA-----UGCUGgGCUU- -5'
25558 5' -59.5 NC_005337.1 + 52081 0.66 0.739102
Target:  5'- -cCGCCgGCCGUgCGCgcccgGCGGCCgCGu- -3'
miRNA:   3'- gaGCGGaCGGCA-GCGa----UGCUGG-GCuu -5'
25558 5' -59.5 NC_005337.1 + 115425 0.66 0.728449
Target:  5'- uCUCGCCgGCCGuccgggagUCGCUGggguuccugguguCGGCCgGAGa -3'
miRNA:   3'- -GAGCGGaCGGC--------AGCGAU-------------GCUGGgCUU- -5'
25558 5' -59.5 NC_005337.1 + 117210 0.66 0.718679
Target:  5'- -cCGCCcGCCuGUCGCUGagcccucCGACCgGAu -3'
miRNA:   3'- gaGCGGaCGG-CAGCGAU-------GCUGGgCUu -5'
25558 5' -59.5 NC_005337.1 + 50435 0.66 0.709823
Target:  5'- gUCGUC-GCCGgUGCUGgaGACCCGGAu -3'
miRNA:   3'- gAGCGGaCGGCaGCGAUg-CUGGGCUU- -5'
25558 5' -59.5 NC_005337.1 + 117508 0.66 0.709823
Target:  5'- -cUGCCUGCuCGaggUGCU-CGACCUGAAc -3'
miRNA:   3'- gaGCGGACG-GCa--GCGAuGCUGGGCUU- -5'
25558 5' -59.5 NC_005337.1 + 98589 0.66 0.699923
Target:  5'- gCUCGCCaGCCgGUCGaagGCGGCCUc-- -3'
miRNA:   3'- -GAGCGGaCGG-CAGCga-UGCUGGGcuu -5'
25558 5' -59.5 NC_005337.1 + 28032 0.67 0.689967
Target:  5'- aUCGCCUGCCGcCGgcacGCGACCg--- -3'
miRNA:   3'- gAGCGGACGGCaGCga--UGCUGGgcuu -5'
25558 5' -59.5 NC_005337.1 + 10011 0.67 0.689967
Target:  5'- -gCGCC-GCCGUCGUcgugcuCGAuCCCGGAa -3'
miRNA:   3'- gaGCGGaCGGCAGCGau----GCU-GGGCUU- -5'
25558 5' -59.5 NC_005337.1 + 47478 0.67 0.679964
Target:  5'- gUCG-CUGCCGUCGCgg-GACCUGc- -3'
miRNA:   3'- gAGCgGACGGCAGCGaugCUGGGCuu -5'
25558 5' -59.5 NC_005337.1 + 132265 0.67 0.669923
Target:  5'- -aCGCCgaugGCCGUgcUGCUGCGGucgUCCGAc -3'
miRNA:   3'- gaGCGGa---CGGCA--GCGAUGCU---GGGCUu -5'
25558 5' -59.5 NC_005337.1 + 66028 0.67 0.669923
Target:  5'- gCUCGCCcacgcGCCGgccgCGCUcCGgaACCCGGAc -3'
miRNA:   3'- -GAGCGGa----CGGCa---GCGAuGC--UGGGCUU- -5'
25558 5' -59.5 NC_005337.1 + 101080 0.67 0.669923
Target:  5'- -gCGCCccGCCGUCGggAgGGCCCGu- -3'
miRNA:   3'- gaGCGGa-CGGCAGCgaUgCUGGGCuu -5'
25558 5' -59.5 NC_005337.1 + 29544 0.67 0.667911
Target:  5'- uCUCGCCgaucuugaugccGCCGcCGCggcgGCGGCCCu-- -3'
miRNA:   3'- -GAGCGGa-----------CGGCaGCGa---UGCUGGGcuu -5'
25558 5' -59.5 NC_005337.1 + 1671 0.67 0.659852
Target:  5'- -cCGCC-GCCGcgUCGUUGCGguGCCCGGu -3'
miRNA:   3'- gaGCGGaCGGC--AGCGAUGC--UGGGCUu -5'
25558 5' -59.5 NC_005337.1 + 122721 0.67 0.659852
Target:  5'- -cCGCgUGCUGUCGC-ACGuGCCCGc- -3'
miRNA:   3'- gaGCGgACGGCAGCGaUGC-UGGGCuu -5'
25558 5' -59.5 NC_005337.1 + 76241 0.67 0.659852
Target:  5'- -aCGCC-GCCGUCGaagagcGCGGCCUGGc -3'
miRNA:   3'- gaGCGGaCGGCAGCga----UGCUGGGCUu -5'
25558 5' -59.5 NC_005337.1 + 56621 0.67 0.659852
Target:  5'- uUCGCCgGCCG-CGuCUACGACgCGc- -3'
miRNA:   3'- gAGCGGaCGGCaGC-GAUGCUGgGCuu -5'
25558 5' -59.5 NC_005337.1 + 26754 0.67 0.649759
Target:  5'- gUCGCCgcgaaacgugGUCGUCG-UGCGACCCa-- -3'
miRNA:   3'- gAGCGGa---------CGGCAGCgAUGCUGGGcuu -5'
25558 5' -59.5 NC_005337.1 + 122674 0.67 0.648749
Target:  5'- gUgGCCcGCCGggugugccccugcUCGCUGCcGCCCGAGg -3'
miRNA:   3'- gAgCGGaCGGC-------------AGCGAUGcUGGGCUU- -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.