miRNA display CGI


Results 1 - 20 of 81 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
11539 5' -63 NC_003085.1 + 16232 0.66 0.339476
Target:  5'- uCGCGGCu--GGcGucgucauccucGUGCUGCgCCGCCGCc -3'
miRNA:   3'- -GCGCCGucuCC-C-----------UACGGUG-GGCGGCG- -5'
11539 5' -63 NC_003085.1 + 10154 0.66 0.339476
Target:  5'- aCGcCGGCGGGGGcucAUGCggaagcaACCCaGCCGUg -3'
miRNA:   3'- -GC-GCCGUCUCCc--UACGg------UGGG-CGGCG- -5'
11539 5' -63 NC_003085.1 + 11608 0.66 0.331705
Target:  5'- gGCGGCGcGaAGGGGcugugcaggggcUGCUACCaGCgCGCg -3'
miRNA:   3'- gCGCCGU-C-UCCCU------------ACGGUGGgCG-GCG- -5'
11539 5' -63 NC_003085.1 + 6085 0.66 0.331705
Target:  5'- aGCGGCcccAGGGA-GUCcUCCGUCGCc -3'
miRNA:   3'- gCGCCGuc-UCCCUaCGGuGGGCGGCG- -5'
11539 5' -63 NC_003085.1 + 12615 0.66 0.331705
Target:  5'- aGCGGCGc--GGGUGgCAUCCcucuGCCGCg -3'
miRNA:   3'- gCGCCGUcucCCUACgGUGGG----CGGCG- -5'
11539 5' -63 NC_003085.1 + 40375 0.66 0.324067
Target:  5'- gGCgaGGUAGAGGGcgacGCUGCCCagGCCGg -3'
miRNA:   3'- gCG--CCGUCUCCCua--CGGUGGG--CGGCg -5'
11539 5' -63 NC_003085.1 + 49244 0.66 0.324067
Target:  5'- gGCGGCAGGaccGGGcgGCC-UCCGaCCu- -3'
miRNA:   3'- gCGCCGUCU---CCCuaCGGuGGGC-GGcg -5'
11539 5' -63 NC_003085.1 + 9144 0.66 0.324066
Target:  5'- aGCGGCAccuGGcGGA-GCUcgCCGCCGCg -3'
miRNA:   3'- gCGCCGUc--UC-CCUaCGGugGGCGGCG- -5'
11539 5' -63 NC_003085.1 + 23782 0.66 0.316559
Target:  5'- cCGgGGCcgucuugacGGAGGaGGcUGCUgcgcggGCCCGCUGCg -3'
miRNA:   3'- -GCgCCG---------UCUCC-CU-ACGG------UGGGCGGCG- -5'
11539 5' -63 NC_003085.1 + 37993 0.66 0.316559
Target:  5'- uGCGGCGGugguGGGAcGCucaCACCgCGUCGg -3'
miRNA:   3'- gCGCCGUCu---CCCUaCG---GUGG-GCGGCg -5'
11539 5' -63 NC_003085.1 + 38147 0.66 0.316559
Target:  5'- uGCuGGCGuuGGuGGUGgCGcucCCCGCCGCg -3'
miRNA:   3'- gCG-CCGUcuCC-CUACgGU---GGGCGGCG- -5'
11539 5' -63 NC_003085.1 + 28596 0.66 0.309184
Target:  5'- gGCGGUGGAcacgccGGuGGUGUggCGCUCGCUGCu -3'
miRNA:   3'- gCGCCGUCU------CC-CUACG--GUGGGCGGCG- -5'
11539 5' -63 NC_003085.1 + 15480 0.66 0.304822
Target:  5'- aCGCGGCGcAGGGGUGCCgugugagugacauugACuuGgCGg -3'
miRNA:   3'- -GCGCCGUcUCCCUACGG---------------UGggCgGCg -5'
11539 5' -63 NC_003085.1 + 16319 0.66 0.301941
Target:  5'- gGCGGCGGcgcagcacGaGGAUGacgaCGCCaGCCGCg -3'
miRNA:   3'- gCGCCGUCu-------C-CCUACg---GUGGgCGGCG- -5'
11539 5' -63 NC_003085.1 + 31574 0.66 0.30194
Target:  5'- uGUGG-AGuGGGAUGCCucAUCCGuuGUu -3'
miRNA:   3'- gCGCCgUCuCCCUACGG--UGGGCggCG- -5'
11539 5' -63 NC_003085.1 + 13184 0.66 0.294829
Target:  5'- aGCGGCaccacAGcAGGGAUgGCCAUaCgGUCGCu -3'
miRNA:   3'- gCGCCG-----UC-UCCCUA-CGGUG-GgCGGCG- -5'
11539 5' -63 NC_003085.1 + 17583 0.66 0.294829
Target:  5'- -cCGGCuucGGGGUGacaCGCCUGCUGCu -3'
miRNA:   3'- gcGCCGucuCCCUACg--GUGGGCGGCG- -5'
11539 5' -63 NC_003085.1 + 22994 0.67 0.290624
Target:  5'- aCGCGGCcucGGAGGGcuucgccccggcaGCC-UCCGCCGg -3'
miRNA:   3'- -GCGCCG---UCUCCCua-----------CGGuGGGCGGCg -5'
11539 5' -63 NC_003085.1 + 8528 0.67 0.290624
Target:  5'- gCGCaGGCGaAGGcGGUgacGCCAugacuugccccgcucCCCGCCGCa -3'
miRNA:   3'- -GCG-CCGUcUCC-CUA---CGGU---------------GGGCGGCG- -5'
11539 5' -63 NC_003085.1 + 22811 0.67 0.28854
Target:  5'- gCGCGGguGucGGA-GCCGagugcuucucggcagCCGCCGCc -3'
miRNA:   3'- -GCGCCguCucCCUaCGGUg--------------GGCGGCG- -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.