miRNA display CGI


Results 1 - 18 of 18 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
30473 3' -54.5 NC_006548.1 + 31314 1.11 0.000537
Target:  5'- uGGCCCCGGCACUGAAUGACCAGUAUCc -3'
miRNA:   3'- -CCGGGGCCGUGACUUACUGGUCAUAG- -5'
30473 3' -54.5 NC_006548.1 + 17868 0.82 0.06157
Target:  5'- uGCCCCGGCGCUGAcgaagGACCGGUcGUUa -3'
miRNA:   3'- cCGGGGCCGUGACUua---CUGGUCA-UAG- -5'
30473 3' -54.5 NC_006548.1 + 23387 0.72 0.310524
Target:  5'- aGCCCCGGCGCUGGAggaaGCC---GUCg -3'
miRNA:   3'- cCGGGGCCGUGACUUac--UGGucaUAG- -5'
30473 3' -54.5 NC_006548.1 + 36520 0.72 0.326725
Target:  5'- aGGCCCCGGCcgauaucuGCUGAGaucgucgcGACCGGgcagaaGUCg -3'
miRNA:   3'- -CCGGGGCCG--------UGACUUa-------CUGGUCa-----UAG- -5'
30473 3' -54.5 NC_006548.1 + 2908 0.71 0.369922
Target:  5'- cGGCCaaGGCGCUGAucGACgAGUGc- -3'
miRNA:   3'- -CCGGggCCGUGACUuaCUGgUCAUag -5'
30473 3' -54.5 NC_006548.1 + 37774 0.7 0.426683
Target:  5'- cGGUCgCCGGCACUGuGAUGAgC-GUGUUc -3'
miRNA:   3'- -CCGG-GGCCGUGAC-UUACUgGuCAUAG- -5'
30473 3' -54.5 NC_006548.1 + 16785 0.69 0.477728
Target:  5'- uGGCCCauuGGCugUac-UGGCCGGUGUUc -3'
miRNA:   3'- -CCGGGg--CCGugAcuuACUGGUCAUAG- -5'
30473 3' -54.5 NC_006548.1 + 34877 0.68 0.536018
Target:  5'- aGCCCCGGUacacugcgcagaugcGCUGuuguGAUGAUCAG-AUCc -3'
miRNA:   3'- cCGGGGCCG---------------UGAC----UUACUGGUCaUAG- -5'
30473 3' -54.5 NC_006548.1 + 34138 0.67 0.553783
Target:  5'- uGCaCCCGGCugUcGGccGGCCAGU-UCa -3'
miRNA:   3'- cCG-GGGCCGugA-CUuaCUGGUCAuAG- -5'
30473 3' -54.5 NC_006548.1 + 22962 0.67 0.587525
Target:  5'- cGCCgCCGcGCgACUGAAUcGCCAGU-UCg -3'
miRNA:   3'- cCGG-GGC-CG-UGACUUAcUGGUCAuAG- -5'
30473 3' -54.5 NC_006548.1 + 28231 0.67 0.598864
Target:  5'- aGGUCUcgcaCGGC-CUGAGUGAa-GGUGUCg -3'
miRNA:   3'- -CCGGG----GCCGuGACUUACUggUCAUAG- -5'
30473 3' -54.5 NC_006548.1 + 36693 0.67 0.598864
Target:  5'- cGGCCUcaugCGGCGCUGGc--ACC-GUAUCg -3'
miRNA:   3'- -CCGGG----GCCGUGACUuacUGGuCAUAG- -5'
30473 3' -54.5 NC_006548.1 + 19597 0.67 0.598864
Target:  5'- uGGCCgagCCGGCAuCUGGAUuGugUAGgGUCc -3'
miRNA:   3'- -CCGG---GGCCGU-GACUUA-CugGUCaUAG- -5'
30473 3' -54.5 NC_006548.1 + 32965 0.66 0.631885
Target:  5'- cGCCCggugcagCGGCGCUGGccGGCCGGc--- -3'
miRNA:   3'- cCGGG-------GCCGUGACUuaCUGGUCauag -5'
30473 3' -54.5 NC_006548.1 + 17436 0.66 0.641006
Target:  5'- uGGCCUCGGC-CUGggUGGacucaacuucgaccCCAuagGUCu -3'
miRNA:   3'- -CCGGGGCCGuGACuuACU--------------GGUca-UAG- -5'
30473 3' -54.5 NC_006548.1 + 6889 0.66 0.644426
Target:  5'- cGGCUCCGGCGCcaauagcugggaUGGAUGcaGgCGGUAg- -3'
miRNA:   3'- -CCGGGGCCGUG------------ACUUAC--UgGUCAUag -5'
30473 3' -54.5 NC_006548.1 + 25079 0.66 0.666042
Target:  5'- cGCCCCGGCcaccgauccagggGC-GGAUGACCuGcagAUCc -3'
miRNA:   3'- cCGGGGCCG-------------UGaCUUACUGGuCa--UAG- -5'
30473 3' -54.5 NC_006548.1 + 31211 0.66 0.667177
Target:  5'- gGGCUUCGGCAaccGAGUGGCUc-UGUCa -3'
miRNA:   3'- -CCGGGGCCGUga-CUUACUGGucAUAG- -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.