miRNA display CGI


Results 1 - 20 of 64 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
12823 3' -54.3 NC_003387.1 + 52716 0.66 0.751483
Target:  5'- cGCGAAcgauCGCGGCGCCCc--UCgCGGCa -3'
miRNA:   3'- -UGCUUu---GCGUCGUGGGccaAGaGCUG- -5'
12823 3' -54.3 NC_003387.1 + 52574 0.66 0.751483
Target:  5'- cGCGAGugGUAGCaaaccGCCCGGcgagCGAg -3'
miRNA:   3'- -UGCUUugCGUCG-----UGGGCCaagaGCUg -5'
12823 3' -54.3 NC_003387.1 + 50663 0.66 0.77214
Target:  5'- cACGAAcaugGCGCcGcCACCgCGGccagCUCGGCg -3'
miRNA:   3'- -UGCUU----UGCGuC-GUGG-GCCaa--GAGCUG- -5'
12823 3' -54.3 NC_003387.1 + 50241 0.71 0.46973
Target:  5'- uACGAGGCGCcguacgucAGCGCCgggCGGUgcacCUCGGCc -3'
miRNA:   3'- -UGCUUUGCG--------UCGUGG---GCCAa---GAGCUG- -5'
12823 3' -54.3 NC_003387.1 + 49197 0.67 0.708776
Target:  5'- cUGggGCgGCGGCgggggcacugGCgCCGGUUCguUCGACa -3'
miRNA:   3'- uGCuuUG-CGUCG----------UG-GGCCAAG--AGCUG- -5'
12823 3' -54.3 NC_003387.1 + 48827 0.66 0.751483
Target:  5'- gGCGGucagggucgGGCaGCGGCG-CCGGUUC-CGGCa -3'
miRNA:   3'- -UGCU---------UUG-CGUCGUgGGCCAAGaGCUG- -5'
12823 3' -54.3 NC_003387.1 + 48755 0.7 0.490288
Target:  5'- -gGGAACGuCAcGCACgCGGUgCUCGGCg -3'
miRNA:   3'- ugCUUUGC-GU-CGUGgGCCAaGAGCUG- -5'
12823 3' -54.3 NC_003387.1 + 48387 0.66 0.73033
Target:  5'- uACGuuGCGCugguGCGCCU---UCUCGGCg -3'
miRNA:   3'- -UGCuuUGCGu---CGUGGGccaAGAGCUG- -5'
12823 3' -54.3 NC_003387.1 + 46994 0.77 0.208572
Target:  5'- gACGAcgAGCGCGGgcCGCCUGGUgCUCGACu -3'
miRNA:   3'- -UGCU--UUGCGUC--GUGGGCCAaGAGCUG- -5'
12823 3' -54.3 NC_003387.1 + 46169 0.68 0.653749
Target:  5'- cGCGAccucguAACGCAGCGCCaGGga--CGACa -3'
miRNA:   3'- -UGCU------UUGCGUCGUGGgCCaagaGCUG- -5'
12823 3' -54.3 NC_003387.1 + 45825 0.67 0.708776
Target:  5'- gGCGAuAGCGCacuaGGCAgCCGGUgccaCGACg -3'
miRNA:   3'- -UGCU-UUGCG----UCGUgGGCCAaga-GCUG- -5'
12823 3' -54.3 NC_003387.1 + 45143 0.7 0.532585
Target:  5'- uCGAGGCGCGGCGCUCGGagguggUCgcgUGAg -3'
miRNA:   3'- uGCUUUGCGUCGUGGGCCa-----AGa--GCUg -5'
12823 3' -54.3 NC_003387.1 + 44748 0.7 0.528293
Target:  5'- cCGAAGCGCAGCACgCCGcccgccGUgaagcggcccgacCUCGACa -3'
miRNA:   3'- uGCUUUGCGUCGUG-GGC------CAa------------GAGCUG- -5'
12823 3' -54.3 NC_003387.1 + 43683 0.67 0.664839
Target:  5'- cGCGAuccuGGCGUggaucgccgacGGCGCCCgccaGGUgCUCGACg -3'
miRNA:   3'- -UGCU----UUGCG-----------UCGUGGG----CCAaGAGCUG- -5'
12823 3' -54.3 NC_003387.1 + 43117 0.74 0.323675
Target:  5'- cGCGAcGGCGCGGCGCCgCGGUggUgGGCg -3'
miRNA:   3'- -UGCU-UUGCGUCGUGG-GCCAagAgCUG- -5'
12823 3' -54.3 NC_003387.1 + 42912 0.71 0.459618
Target:  5'- --aAAGCGCAGCcugcaGCgCCGGUcgCUCGACa -3'
miRNA:   3'- ugcUUUGCGUCG-----UG-GGCCAa-GAGCUG- -5'
12823 3' -54.3 NC_003387.1 + 41799 0.66 0.751483
Target:  5'- cGCGAccuGGCGCA-CGCCUGGcagaUCaUCGACg -3'
miRNA:   3'- -UGCU---UUGCGUcGUGGGCCa---AG-AGCUG- -5'
12823 3' -54.3 NC_003387.1 + 41299 0.67 0.697879
Target:  5'- cACGAgcaccGACGaCAGCACCuCGGggC-CGAUc -3'
miRNA:   3'- -UGCU-----UUGC-GUCGUGG-GCCaaGaGCUG- -5'
12823 3' -54.3 NC_003387.1 + 38938 0.66 0.740963
Target:  5'- uGCG-AGCGCAGCGCgaCCGGgUCcauacCGACc -3'
miRNA:   3'- -UGCuUUGCGUCGUG--GGCCaAGa----GCUG- -5'
12823 3' -54.3 NC_003387.1 + 37909 0.69 0.565145
Target:  5'- gGCGAccCGCu--GCCCGGUggCUCGGCa -3'
miRNA:   3'- -UGCUuuGCGucgUGGGCCAa-GAGCUG- -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.