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
7020 3' -52.6 NC_001875.2 + 1050 0.66 0.944662
Target:  5'- -cACAGCGuuggGCGCAACGUuGGCgaccgcgCGGUCa -3'
miRNA:   3'- aaUGUCGC----UGUGUUGUAcUCG-------GCCAG- -5'
7020 3' -52.6 NC_001875.2 + 3067 0.68 0.908658
Target:  5'- -cGCAGCGGCGCGccggggucgcccacgGCGUGcacgcGCCGGg- -3'
miRNA:   3'- aaUGUCGCUGUGU---------------UGUACu----CGGCCag -5'
7020 3' -52.6 NC_001875.2 + 3165 0.66 0.96173
Target:  5'- ---gGGCGGCGaguAgGUGAGCCGG-Cg -3'
miRNA:   3'- aaugUCGCUGUgu-UgUACUCGGCCaG- -5'
7020 3' -52.6 NC_001875.2 + 8852 0.71 0.752683
Target:  5'- --uCAGCuGGCGC-ACGUGuuGCCGGUCa -3'
miRNA:   3'- aauGUCG-CUGUGuUGUACu-CGGCCAG- -5'
7020 3' -52.6 NC_001875.2 + 12294 0.67 0.94034
Target:  5'- gUGCAGcCGGCACGccgcCGUGuGCgUGGUCa -3'
miRNA:   3'- aAUGUC-GCUGUGUu---GUACuCG-GCCAG- -5'
7020 3' -52.6 NC_001875.2 + 17693 0.66 0.957955
Target:  5'- -cGCGGCuGCgACAGCAUGAGCUGc-- -3'
miRNA:   3'- aaUGUCGcUG-UGUUGUACUCGGCcag -5'
7020 3' -52.6 NC_001875.2 + 19948 0.68 0.892569
Target:  5'- -aGCGGcCGGCGCGACGguccGGCCGG-Cg -3'
miRNA:   3'- aaUGUC-GCUGUGUUGUac--UCGGCCaG- -5'
7020 3' -52.6 NC_001875.2 + 31981 0.67 0.924397
Target:  5'- -aACAGCGuCGCGuugAUGAGgCCGGUg -3'
miRNA:   3'- aaUGUCGCuGUGUug-UACUC-GGCCAg -5'
7020 3' -52.6 NC_001875.2 + 32396 0.67 0.924397
Target:  5'- -gGCGGCGACGCAAaaguuGUGGGCgaCGG-Cg -3'
miRNA:   3'- aaUGUCGCUGUGUUg----UACUCG--GCCaG- -5'
7020 3' -52.6 NC_001875.2 + 33277 0.71 0.74252
Target:  5'- -gACGGCGGCAgCAGCGcguucuUGAGCaCGGUg -3'
miRNA:   3'- aaUGUCGCUGU-GUUGU------ACUCG-GCCAg -5'
7020 3' -52.6 NC_001875.2 + 33919 0.67 0.918554
Target:  5'- gUGCAGCGACACGugAgguggcccagcuUGcGCCGcGUUu -3'
miRNA:   3'- aAUGUCGCUGUGUugU------------ACuCGGC-CAG- -5'
7020 3' -52.6 NC_001875.2 + 34934 0.69 0.878049
Target:  5'- gUGCGGCGugACAACAacccgGAGCUGu-- -3'
miRNA:   3'- aAUGUCGCugUGUUGUa----CUCGGCcag -5'
7020 3' -52.6 NC_001875.2 + 36611 0.66 0.959494
Target:  5'- --uUAGCGcucacguaaauaagaGCGCAACAUGGcuacGCCGGUg -3'
miRNA:   3'- aauGUCGC---------------UGUGUUGUACU----CGGCCAg -5'
7020 3' -52.6 NC_001875.2 + 39644 0.66 0.96173
Target:  5'- -cGCAGCGaaccgcGCGCGAguuUGGGCCGG-Cg -3'
miRNA:   3'- aaUGUCGC------UGUGUUgu-ACUCGGCCaG- -5'
7020 3' -52.6 NC_001875.2 + 41464 0.71 0.739449
Target:  5'- gUUGCGGCGcGCGCGGCGugucuuguguggucUGcgccGGCCGGUCg -3'
miRNA:   3'- -AAUGUCGC-UGUGUUGU--------------AC----UCGGCCAG- -5'
7020 3' -52.6 NC_001875.2 + 42213 0.69 0.854468
Target:  5'- -cGCGGCGGCACG-CGUGGuGCUuGUCa -3'
miRNA:   3'- aaUGUCGCUGUGUuGUACU-CGGcCAG- -5'
7020 3' -52.6 NC_001875.2 + 42743 0.7 0.819954
Target:  5'- -cGCGGCGACgcGCAugGUGAGCggcgcgcucgGGUCg -3'
miRNA:   3'- aaUGUCGCUG--UGUugUACUCGg---------CCAG- -5'
7020 3' -52.6 NC_001875.2 + 44540 0.67 0.918554
Target:  5'- -aGCAGCGucGCGCGGCGU--GCCGGg- -3'
miRNA:   3'- aaUGUCGC--UGUGUUGUAcuCGGCCag -5'
7020 3' -52.6 NC_001875.2 + 49639 0.69 0.854468
Target:  5'- -aGCGGCGACACgAGCGgccGCCGG-Cg -3'
miRNA:   3'- aaUGUCGCUGUG-UUGUacuCGGCCaG- -5'
7020 3' -52.6 NC_001875.2 + 57931 0.66 0.96173
Target:  5'- ---gAGCGACGCAAUGUGucGCgaaacgCGGUCg -3'
miRNA:   3'- aaugUCGCUGUGUUGUACu-CG------GCCAG- -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.