miRNA display CGI


Results 1 - 20 of 21 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
13241 5' -50.4 NC_003401.1 + 63390 0.66 0.988505
Target:  5'- aAACGCcc-GGGCCCucuGGGUUAGAAGu -3'
miRNA:   3'- aUUGCGaucUCCGGG---UCCAGUUUUUg -5'
13241 5' -50.4 NC_003401.1 + 15739 0.66 0.988505
Target:  5'- --cUGCUGGAGGCcgcggCCAGG--GAGAACu -3'
miRNA:   3'- auuGCGAUCUCCG-----GGUCCagUUUUUG- -5'
13241 5' -50.4 NC_003401.1 + 118687 0.66 0.986897
Target:  5'- cAACGCgAGGGGCCgCuGGcgCGGAAAUu -3'
miRNA:   3'- aUUGCGaUCUCCGG-GuCCa-GUUUUUG- -5'
13241 5' -50.4 NC_003401.1 + 79295 0.66 0.985122
Target:  5'- aAACGgaucgGGuGGCCCGGGaUCAGAGGg -3'
miRNA:   3'- aUUGCga---UCuCCGGGUCC-AGUUUUUg -5'
13241 5' -50.4 NC_003401.1 + 103597 0.66 0.983169
Target:  5'- aAACGCUGGgggucugaacgcGGGCCCGuuuGGaagCAGAGAUg -3'
miRNA:   3'- aUUGCGAUC------------UCCGGGU---CCa--GUUUUUG- -5'
13241 5' -50.4 NC_003401.1 + 14923 0.66 0.983169
Target:  5'- -cACGCgacGAGGCggucgcugaGGGUCGAGAGCa -3'
miRNA:   3'- auUGCGau-CUCCGgg-------UCCAGUUUUUG- -5'
13241 5' -50.4 NC_003401.1 + 89408 0.66 0.983169
Target:  5'- cGGCGUUAGcGGCCCAuccaacugaGGUUuuGGAAGCc -3'
miRNA:   3'- aUUGCGAUCuCCGGGU---------CCAG--UUUUUG- -5'
13241 5' -50.4 NC_003401.1 + 120225 0.67 0.978689
Target:  5'- aAACGCUAGcauccgccugguGGGCCCuGG-CAAcAGACc -3'
miRNA:   3'- aUUGCGAUC------------UCCGGGuCCaGUU-UUUG- -5'
13241 5' -50.4 NC_003401.1 + 116544 0.67 0.978689
Target:  5'- uUAGCGCUauaaaAGAGGCgCCAGGagccuuGGCa -3'
miRNA:   3'- -AUUGCGA-----UCUCCG-GGUCCaguuu-UUG- -5'
13241 5' -50.4 NC_003401.1 + 23163 0.67 0.976144
Target:  5'- aGACGCgcGGGGCCCaaAGGgccccgCGAAAuuACa -3'
miRNA:   3'- aUUGCGauCUCCGGG--UCCa-----GUUUU--UG- -5'
13241 5' -50.4 NC_003401.1 + 120346 0.67 0.973383
Target:  5'- gGACGCUucguGGGCCaggAGGUUAGAGAg -3'
miRNA:   3'- aUUGCGAuc--UCCGGg--UCCAGUUUUUg -5'
13241 5' -50.4 NC_003401.1 + 39271 0.69 0.947368
Target:  5'- --uCGCUAGAGGCCUuGGaCAGGGc- -3'
miRNA:   3'- auuGCGAUCUCCGGGuCCaGUUUUug -5'
13241 5' -50.4 NC_003401.1 + 61993 0.69 0.942623
Target:  5'- cUAACGCUAGGGGgcgauaCCAGGgacacGAAGCu -3'
miRNA:   3'- -AUUGCGAUCUCCg-----GGUCCagu--UUUUG- -5'
13241 5' -50.4 NC_003401.1 + 16921 0.69 0.942623
Target:  5'- cGACGCUguuucGGAGGUCCAGauagcucgcGUUGAGGACc -3'
miRNA:   3'- aUUGCGA-----UCUCCGGGUC---------CAGUUUUUG- -5'
13241 5' -50.4 NC_003401.1 + 121540 0.69 0.937608
Target:  5'- gGACGUcGGAGGCUCAGGcgguUCAGGu-- -3'
miRNA:   3'- aUUGCGaUCUCCGGGUCC----AGUUUuug -5'
13241 5' -50.4 NC_003401.1 + 68636 0.69 0.932322
Target:  5'- --cCGgUAGAGGCagaaCAGGUUAAAGAg -3'
miRNA:   3'- auuGCgAUCUCCGg---GUCCAGUUUUUg -5'
13241 5' -50.4 NC_003401.1 + 987 0.7 0.907794
Target:  5'- -uAUGCUuugugccugggggAGAGGCCCGGGUCc----- -3'
miRNA:   3'- auUGCGA-------------UCUCCGGGUCCAGuuuuug -5'
13241 5' -50.4 NC_003401.1 + 30321 0.71 0.87259
Target:  5'- cGGCGCUGGAGGCaaAGGcCAuaucccaucuAAAACa -3'
miRNA:   3'- aUUGCGAUCUCCGggUCCaGU----------UUUUG- -5'
13241 5' -50.4 NC_003401.1 + 133692 0.72 0.839453
Target:  5'- gGGCGggggAGAGGCCCGGGUCc----- -3'
miRNA:   3'- aUUGCga--UCUCCGGGUCCAGuuuuug -5'
13241 5' -50.4 NC_003401.1 + 101387 0.72 0.808559
Target:  5'- aGACGCgc-AGGCCCGGGgaccguccgcgugCAAAAACg -3'
miRNA:   3'- aUUGCGaucUCCGGGUCCa------------GUUUUUG- -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.