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
13225 3' -63.6 NC_003401.1 + 11763 0.66 0.53563
Target:  5'- -cCGGCgUUGGCUucgcggugGUGGUcgCGCCCUUg -3'
miRNA:   3'- guGCCGgAACCGG--------CACCG--GCGGGAGu -5'
13225 3' -63.6 NC_003401.1 + 109649 0.66 0.526098
Target:  5'- gACGGCCUcggugcguugaGGCgaacgggcucCGUGGcCCGCCCUUc -3'
miRNA:   3'- gUGCCGGAa----------CCG----------GCACC-GGCGGGAGu -5'
13225 3' -63.6 NC_003401.1 + 132516 0.66 0.507232
Target:  5'- gGCGGCCgggGGCgGcGGCCgcggGCCCg-- -3'
miRNA:   3'- gUGCCGGaa-CCGgCaCCGG----CGGGagu -5'
13225 3' -63.6 NC_003401.1 + 132232 0.68 0.409481
Target:  5'- gCGCcGCCgccgGGCCGcGGCCGCCaUCu -3'
miRNA:   3'- -GUGcCGGaa--CCGGCaCCGGCGGgAGu -5'
13225 3' -63.6 NC_003401.1 + 117760 0.68 0.409481
Target:  5'- gGCGGCCaUGGUCGccgcGGCCGUCUg-- -3'
miRNA:   3'- gUGCCGGaACCGGCa---CCGGCGGGagu -5'
13225 3' -63.6 NC_003401.1 + 132360 0.69 0.361342
Target:  5'- cCGCGGCCgccGCCcccGGCCGCCC-CGc -3'
miRNA:   3'- -GUGCCGGaacCGGca-CCGGCGGGaGU- -5'
13225 3' -63.6 NC_003401.1 + 121944 0.69 0.338793
Target:  5'- gGCGGCUggcgcGGCCGUGccacgcccccuGCCGCgCCUCc -3'
miRNA:   3'- gUGCCGGaa---CCGGCAC-----------CGGCG-GGAGu -5'
13225 3' -63.6 NC_003401.1 + 80169 0.7 0.317284
Target:  5'- gGCGcGCCUUGGCC-UGGCCcaGCCUa-- -3'
miRNA:   3'- gUGC-CGGAACCGGcACCGG--CGGGagu -5'
13225 3' -63.6 NC_003401.1 + 30164 0.7 0.310347
Target:  5'- aACGGCCgaggaaGGCC-UGGCCGCCaUCc -3'
miRNA:   3'- gUGCCGGaa----CCGGcACCGGCGGgAGu -5'
13225 3' -63.6 NC_003401.1 + 13147 0.7 0.303525
Target:  5'- cCACGaaCUUGGCCGacaccGGCCGCCCg-- -3'
miRNA:   3'- -GUGCcgGAACCGGCa----CCGGCGGGagu -5'
13225 3' -63.6 NC_003401.1 + 132414 0.7 0.301501
Target:  5'- gCGgGGCCgggggucccgcggggGGCCGgGGCCGCCCcCGg -3'
miRNA:   3'- -GUgCCGGaa-------------CCGGCaCCGGCGGGaGU- -5'
13225 3' -63.6 NC_003401.1 + 125268 0.71 0.271149
Target:  5'- cCACGcaacccgucuGCCaacucGGCCGUGGCCGCCaUCAc -3'
miRNA:   3'- -GUGC----------CGGaa---CCGGCACCGGCGGgAGU- -5'
13225 3' -63.6 NC_003401.1 + 105975 0.71 0.253091
Target:  5'- --aGGCgCUUGGgCGUGGCCGCCa--- -3'
miRNA:   3'- gugCCG-GAACCgGCACCGGCGGgagu -5'
13225 3' -63.6 NC_003401.1 + 66534 0.73 0.199969
Target:  5'- uCACGGCCUUaGcGCCGgGGacccguuuuauuCCGCCCUCGu -3'
miRNA:   3'- -GUGCCGGAA-C-CGGCaCC------------GGCGGGAGU- -5'
13225 3' -63.6 NC_003401.1 + 119260 0.73 0.186038
Target:  5'- -gUGGCCaaGGUCGUGGCCGCCaacgCAc -3'
miRNA:   3'- guGCCGGaaCCGGCACCGGCGGga--GU- -5'
13225 3' -63.6 NC_003401.1 + 72634 0.74 0.170455
Target:  5'- cCACGGCCaaGGCCGUgacgcgcgggcagauGGaagaCGCCCUCGc -3'
miRNA:   3'- -GUGCCGGaaCCGGCA---------------CCg---GCGGGAGU- -5'
13225 3' -63.6 NC_003401.1 + 20257 0.74 0.160725
Target:  5'- cCGCGGCCaUUGGCuccgcggugacCGUGGugcuguCCGCCCUCGa -3'
miRNA:   3'- -GUGCCGG-AACCG-----------GCACC------GGCGGGAGU- -5'
13225 3' -63.6 NC_003401.1 + 72484 1.07 0.000713
Target:  5'- uCACGGCCUUGGCCGUGGCCGCCCUCAc -3'
miRNA:   3'- -GUGCCGGAACCGGCACCGGCGGGAGU- -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.