miRNA display CGI


Results 41 - 60 of 106 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
26476 3' -65.6 NC_005357.1 + 10785 0.67 0.171733
Target:  5'- --uUCGGCCuGGGauugcauguacugcuGCGCCuCGGCGCGGc -3'
miRNA:   3'- ugcGGCCGGuUCC---------------CGCGG-GUCGCGCC- -5'
26476 3' -65.6 NC_005357.1 + 37736 0.67 0.169964
Target:  5'- uUGCCGGCCAuucucgccGCGCuauCCGGCGCGc -3'
miRNA:   3'- uGCGGCCGGUucc-----CGCG---GGUCGCGCc -5'
26476 3' -65.6 NC_005357.1 + 18330 0.67 0.169964
Target:  5'- cGCGCauGUagcGGGGUGCCCGugccccGCGCGGu -3'
miRNA:   3'- -UGCGgcCGgu-UCCCGCGGGU------CGCGCC- -5'
26476 3' -65.6 NC_005357.1 + 38710 0.67 0.165611
Target:  5'- gGCGUgaaCGGCac-GGGCGCCacgAGCGCGu -3'
miRNA:   3'- -UGCG---GCCGguuCCCGCGGg--UCGCGCc -5'
26476 3' -65.6 NC_005357.1 + 18684 0.67 0.165611
Target:  5'- gGCGCCGGCau--GGCGCUgCuGCGCGc -3'
miRNA:   3'- -UGCGGCCGguucCCGCGG-GuCGCGCc -5'
26476 3' -65.6 NC_005357.1 + 4094 0.68 0.157205
Target:  5'- -gGCCGGCCAGGugggcGGCGCUgAauucGuCGCGGu -3'
miRNA:   3'- ugCGGCCGGUUC-----CCGCGGgU----C-GCGCC- -5'
26476 3' -65.6 NC_005357.1 + 4040 0.68 0.157205
Target:  5'- -aGCCGGCCGcggcgAGcGGCaggccagcgGCCCAGgGgGGa -3'
miRNA:   3'- ugCGGCCGGU-----UC-CCG---------CGGGUCgCgCC- -5'
26476 3' -65.6 NC_005357.1 + 21333 0.68 0.157205
Target:  5'- gAUGCCGGCCAcc-GCGCCCAGguUGCc- -3'
miRNA:   3'- -UGCGGCCGGUuccCGCGGGUC--GCGcc -5'
26476 3' -65.6 NC_005357.1 + 18286 0.68 0.153148
Target:  5'- gGCGCUgGGCCA--GGCGCgCAGC-CGGc -3'
miRNA:   3'- -UGCGG-CCGGUucCCGCGgGUCGcGCC- -5'
26476 3' -65.6 NC_005357.1 + 36262 0.68 0.149186
Target:  5'- -gGCCcGCUAAGGGUGCCC-GUGCc- -3'
miRNA:   3'- ugCGGcCGGUUCCCGCGGGuCGCGcc -5'
26476 3' -65.6 NC_005357.1 + 12007 0.68 0.145318
Target:  5'- cACGUCGGCCAGcagcgcggccGuGGCcggcgaggucuuGCCCAGCGUGu -3'
miRNA:   3'- -UGCGGCCGGUU----------C-CCG------------CGGGUCGCGCc -5'
26476 3' -65.6 NC_005357.1 + 30922 0.68 0.145318
Target:  5'- cACGCCaGCgCAGGcGCGCCCuuUGCGGu -3'
miRNA:   3'- -UGCGGcCG-GUUCcCGCGGGucGCGCC- -5'
26476 3' -65.6 NC_005357.1 + 24646 0.68 0.141541
Target:  5'- gUGCCGGCgGgccAGGaugguguugucGCGCCCGcCGCGGg -3'
miRNA:   3'- uGCGGCCGgU---UCC-----------CGCGGGUcGCGCC- -5'
26476 3' -65.6 NC_005357.1 + 40189 0.69 0.134257
Target:  5'- cUGCCGGCCAAG---GCCCGGCGUu- -3'
miRNA:   3'- uGCGGCCGGUUCccgCGGGUCGCGcc -5'
26476 3' -65.6 NC_005357.1 + 33423 0.69 0.134257
Target:  5'- uGCGCC-GCCugcuGGaaGCGCCCccGCGCGGc -3'
miRNA:   3'- -UGCGGcCGGuu--CC--CGCGGGu-CGCGCC- -5'
26476 3' -65.6 NC_005357.1 + 18883 0.69 0.133902
Target:  5'- gAUGUCGGCCGAGGccaucgaccgcguGCGCCgccuggaaGGCGCGc -3'
miRNA:   3'- -UGCGGCCGGUUCC-------------CGCGGg-------UCGCGCc -5'
26476 3' -65.6 NC_005357.1 + 22219 0.69 0.130746
Target:  5'- -aGCCGGCCGcGGGCGCugccaagaCCgAGgGCGa -3'
miRNA:   3'- ugCGGCCGGUuCCCGCG--------GG-UCgCGCc -5'
26476 3' -65.6 NC_005357.1 + 4430 0.69 0.130746
Target:  5'- gUGCCGcGCCAGGGGgaaGCCgcCAGCgGUGGc -3'
miRNA:   3'- uGCGGC-CGGUUCCCg--CGG--GUCG-CGCC- -5'
26476 3' -65.6 NC_005357.1 + 18753 0.69 0.130746
Target:  5'- gUGuCCGGCCcgaccGAGGGuCGCCUGGUGCa- -3'
miRNA:   3'- uGC-GGCCGG-----UUCCC-GCGGGUCGCGcc -5'
26476 3' -65.6 NC_005357.1 + 2850 0.69 0.128338
Target:  5'- gGCGCCagcaccagcgaggGGCCugguucgaccaguucGAGGaUGUCCAGCGCGGu -3'
miRNA:   3'- -UGCGG-------------CCGG---------------UUCCcGCGGGUCGCGCC- -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.