miRNA display CGI


Results 1 - 20 of 46 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
19241 3' -56.6 NC_004684.1 + 57182 0.66 0.683902
Target:  5'- --gCUCGGgcgcaggcGGGCCUGGAaggcggcgGCGCGAuGGUg -3'
miRNA:   3'- uagGAGUU--------UCCGGACCU--------CGUGCU-CCG- -5'
19241 3' -56.6 NC_004684.1 + 8472 0.66 0.683902
Target:  5'- uGUCCcCGGAGGCggggUGGGGCGgGGacGGCg -3'
miRNA:   3'- -UAGGaGUUUCCGg---ACCUCGUgCU--CCG- -5'
19241 3' -56.6 NC_004684.1 + 53613 0.66 0.683902
Target:  5'- --gCUgGAGGcgcagguuggucGCCUGGAGCGCcAGGCc -3'
miRNA:   3'- uagGAgUUUC------------CGGACCUCGUGcUCCG- -5'
19241 3' -56.6 NC_004684.1 + 62834 0.66 0.662213
Target:  5'- -gCCUCGAuGGCCUcGGcaaucagccacAGCGcCGGGGUg -3'
miRNA:   3'- uaGGAGUUuCCGGA-CC-----------UCGU-GCUCCG- -5'
19241 3' -56.6 NC_004684.1 + 14570 0.66 0.651322
Target:  5'- -aCCUgGugcgccGGGGCCaccgaggaGGAGCGCGAGGa -3'
miRNA:   3'- uaGGAgU------UUCCGGa-------CCUCGUGCUCCg -5'
19241 3' -56.6 NC_004684.1 + 34464 0.66 0.650232
Target:  5'- -gCCUCAAGGGUCaUGGucuguGCAgcgucgcCGAGGUc -3'
miRNA:   3'- uaGGAGUUUCCGG-ACCu----CGU-------GCUCCG- -5'
19241 3' -56.6 NC_004684.1 + 41858 0.66 0.629498
Target:  5'- uUCCUCGGcguGGUCUGGuacuGgACGcAGGCc -3'
miRNA:   3'- uAGGAGUUu--CCGGACCu---CgUGC-UCCG- -5'
19241 3' -56.6 NC_004684.1 + 54617 0.66 0.629498
Target:  5'- uGUCCUCGuuGGCCgcaGGcgcagccGCGCG-GGCc -3'
miRNA:   3'- -UAGGAGUuuCCGGa--CCu------CGUGCuCCG- -5'
19241 3' -56.6 NC_004684.1 + 47125 0.66 0.629498
Target:  5'- -aCCaCAGGGGCCgGGAacGCGCcGGGCc -3'
miRNA:   3'- uaGGaGUUUCCGGaCCU--CGUGcUCCG- -5'
19241 3' -56.6 NC_004684.1 + 51162 0.67 0.612042
Target:  5'- cUCCUCGGuguggccgaugcgccGGGCCaUGGAccGCGCGcccuGGCc -3'
miRNA:   3'- uAGGAGUU---------------UCCGG-ACCU--CGUGCu---CCG- -5'
19241 3' -56.6 NC_004684.1 + 52819 0.67 0.607683
Target:  5'- cUCCUCGGuGGCCccGGcGCACcAGGUg -3'
miRNA:   3'- uAGGAGUUuCCGGa-CCuCGUGcUCCG- -5'
19241 3' -56.6 NC_004684.1 + 28152 0.67 0.604416
Target:  5'- -gCCUCAAcuacGGCCUGcaauGGcuggcgugcaaccuGCGCGAGGCg -3'
miRNA:   3'- uaGGAGUUu---CCGGAC----CU--------------CGUGCUCCG- -5'
19241 3' -56.6 NC_004684.1 + 540 0.67 0.596802
Target:  5'- -cCCggCgAAAGGCCUGGAggGCACcGGGUu -3'
miRNA:   3'- uaGGa-G-UUUCCGGACCU--CGUGcUCCG- -5'
19241 3' -56.6 NC_004684.1 + 36269 0.67 0.585951
Target:  5'- uGUCCggc--GGCCUGGccaAGaACGAGGCg -3'
miRNA:   3'- -UAGGaguuuCCGGACC---UCgUGCUCCG- -5'
19241 3' -56.6 NC_004684.1 + 15516 0.67 0.575137
Target:  5'- -aCCgaggCcGAGGCCuUGGAgguGCugGAGGUg -3'
miRNA:   3'- uaGGa---GuUUCCGG-ACCU---CGugCUCCG- -5'
19241 3' -56.6 NC_004684.1 + 22597 0.67 0.575137
Target:  5'- -gCUUCAAAGGCCUcGGugaggccguuacGGCGCuguggGAGGCc -3'
miRNA:   3'- uaGGAGUUUCCGGA-CC------------UCGUG-----CUCCG- -5'
19241 3' -56.6 NC_004684.1 + 63464 0.68 0.56437
Target:  5'- -gCC-CAGuuccGGCauucgGGGGCGCGAGGCc -3'
miRNA:   3'- uaGGaGUUu---CCGga---CCUCGUGCUCCG- -5'
19241 3' -56.6 NC_004684.1 + 61158 0.68 0.557935
Target:  5'- -aCCgUCGAAGGCCUGGccgcccAGCugGccgagaucgcgccggAGGCc -3'
miRNA:   3'- uaGG-AGUUUCCGGACC------UCGugC---------------UCCG- -5'
19241 3' -56.6 NC_004684.1 + 35974 0.68 0.553657
Target:  5'- cUCCaCGcAGGCCUGGcGCAcaguCGGGGUg -3'
miRNA:   3'- uAGGaGUuUCCGGACCuCGU----GCUCCG- -5'
19241 3' -56.6 NC_004684.1 + 13756 0.68 0.543004
Target:  5'- gGUgCUCAAcGGCCUGGcGCuCcAGGCg -3'
miRNA:   3'- -UAgGAGUUuCCGGACCuCGuGcUCCG- -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.