miRNA display CGI


Results 1 - 16 of 16 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
20479 5' -56.7 NC_004688.1 + 56995 0.66 0.82957
Target:  5'- cGGUGuUGuGGAuuguguucACGGGGgcGGGCAgGGUu -3'
miRNA:   3'- -UCGC-AC-CCU--------UGCUCCuuCCCGUgUCG- -5'
20479 5' -56.7 NC_004688.1 + 17305 0.66 0.794011
Target:  5'- uGCGgaugccgGGGAuuGCGcGGAacAGGcaGCGCAGCg -3'
miRNA:   3'- uCGCa------CCCU--UGCuCCU--UCC--CGUGUCG- -5'
20479 5' -56.7 NC_004688.1 + 54229 0.66 0.794011
Target:  5'- -aCGUcGGGGAUGGGGAugaaucGGGCcCGGUg -3'
miRNA:   3'- ucGCA-CCCUUGCUCCUu-----CCCGuGUCG- -5'
20479 5' -56.7 NC_004688.1 + 86240 0.67 0.784721
Target:  5'- aGGCccGGGAGCucGucGAGGGGCAggccCAGCa -3'
miRNA:   3'- -UCGcaCCCUUG--CucCUUCCCGU----GUCG- -5'
20479 5' -56.7 NC_004688.1 + 58426 0.67 0.765724
Target:  5'- gGGCG-GGGAGCGcgccuacuGGGugauccucauGGGCACcGCg -3'
miRNA:   3'- -UCGCaCCCUUGC--------UCCuu--------CCCGUGuCG- -5'
20479 5' -56.7 NC_004688.1 + 77404 0.68 0.70609
Target:  5'- gGGCGUcGGGGuCGAGGGguuGGGCG-AGUu -3'
miRNA:   3'- -UCGCA-CCCUuGCUCCUu--CCCGUgUCG- -5'
20479 5' -56.7 NC_004688.1 + 100637 0.68 0.675267
Target:  5'- -aCGUGGGuAACu-GGcGGGGCAUGGCa -3'
miRNA:   3'- ucGCACCC-UUGcuCCuUCCCGUGUCG- -5'
20479 5' -56.7 NC_004688.1 + 31609 0.68 0.675267
Target:  5'- uGGUG-GGGGGCGccGAAGauGGCGCGGUg -3'
miRNA:   3'- -UCGCaCCCUUGCucCUUC--CCGUGUCG- -5'
20479 5' -56.7 NC_004688.1 + 108016 0.69 0.664907
Target:  5'- uGCGgGcGGAACugucuGAGGuAGuGGCGCAGCa -3'
miRNA:   3'- uCGCaC-CCUUG-----CUCCuUC-CCGUGUCG- -5'
20479 5' -56.7 NC_004688.1 + 73603 0.71 0.540838
Target:  5'- gAGgGUGGGAucgauGCGGGGccGGGCccGCGGg -3'
miRNA:   3'- -UCgCACCCU-----UGCUCCuuCCCG--UGUCg -5'
20479 5' -56.7 NC_004688.1 + 33988 0.71 0.510787
Target:  5'- gGGCGUcGGGGGCGucaaauccGGGucAGGGUcagGCAGCg -3'
miRNA:   3'- -UCGCA-CCCUUGC--------UCCu-UCCCG---UGUCG- -5'
20479 5' -56.7 NC_004688.1 + 61234 0.71 0.500924
Target:  5'- cGCccuGGAugAUGAGGAAGGGCGgGGCg -3'
miRNA:   3'- uCGcacCCU--UGCUCCUUCCCGUgUCG- -5'
20479 5' -56.7 NC_004688.1 + 39788 0.73 0.443671
Target:  5'- cGGCGUcugcgacugcGGGggUGAGGAgugcgAGGGUgaggGCGGCu -3'
miRNA:   3'- -UCGCA----------CCCuuGCUCCU-----UCCCG----UGUCG- -5'
20479 5' -56.7 NC_004688.1 + 87799 0.74 0.34913
Target:  5'- gAGUucGGGAACGAGGGAGcGCGCuGCg -3'
miRNA:   3'- -UCGcaCCCUUGCUCCUUCcCGUGuCG- -5'
20479 5' -56.7 NC_004688.1 + 6528 0.77 0.244837
Target:  5'- gGGCGUGcGGua-GAGGAucAGGGCGCgAGCg -3'
miRNA:   3'- -UCGCAC-CCuugCUCCU--UCCCGUG-UCG- -5'
20479 5' -56.7 NC_004688.1 + 45024 1.11 0.001221
Target:  5'- uAGCGUGGGAACGAGGAAGGGCACAGCu -3'
miRNA:   3'- -UCGCACCCUUGCUCCUUCCCGUGUCG- -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.