miRNA display CGI


Results 1 - 20 of 62 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
3804 3' -56.8 NC_001650.1 + 20883 1.1 0.002729
Target:  5'- cACCGCCAUAGUAGUCACGUCCCCCGCc -3'
miRNA:   3'- -UGGCGGUAUCAUCAGUGCAGGGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 158804 0.78 0.333264
Target:  5'- cCUGCCccugAGgagGGUCAgGUCCCCCGCc -3'
miRNA:   3'- uGGCGGua--UCa--UCAGUgCAGGGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 154625 0.76 0.385101
Target:  5'- cACCGCCcaGGUccgagagccucugcAGccucucgcUCACGUCCCCCGCg -3'
miRNA:   3'- -UGGCGGuaUCA--------------UC--------AGUGCAGGGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 89820 0.76 0.409133
Target:  5'- cGCCGCCucagcgcguccaGGUAGcCcuCGUCCCCCGCg -3'
miRNA:   3'- -UGGCGGua----------UCAUCaGu-GCAGGGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 161562 0.76 0.415925
Target:  5'- aGCCGCCGgccgcugucgugcgAGgcGUaCGCGcCCCCCGCg -3'
miRNA:   3'- -UGGCGGUa-------------UCauCA-GUGCaGGGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 167506 0.72 0.609804
Target:  5'- aGCUGCCAUcuuGGUGGgaa-GUCCCCUGUg -3'
miRNA:   3'- -UGGCGGUA---UCAUCagugCAGGGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 799 0.72 0.609804
Target:  5'- aGCUGCCAUcuuGGUGGgaa-GUCCCCUGUg -3'
miRNA:   3'- -UGGCGGUA---UCAUCagugCAGGGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 137831 0.72 0.609804
Target:  5'- gGCCGCCGcGGcgcaUCugGUgCCCCGCg -3'
miRNA:   3'- -UGGCGGUaUCauc-AGugCAgGGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 95120 0.72 0.619788
Target:  5'- uGCC-CCccGGUGGgcgguCGUCCCCCGCg -3'
miRNA:   3'- -UGGcGGuaUCAUCagu--GCAGGGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 145920 0.72 0.619788
Target:  5'- cACCGCCGUu-UGGcCACGgggaCCCCGCu -3'
miRNA:   3'- -UGGCGGUAucAUCaGUGCag--GGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 58125 0.71 0.659741
Target:  5'- uGCUGCugguuCAUGGUAGUUGCGUCUgUCGCc -3'
miRNA:   3'- -UGGCG-----GUAUCAUCAGUGCAGGgGGCG- -5'
3804 3' -56.8 NC_001650.1 + 163297 0.71 0.679621
Target:  5'- gUgGCCAUGGUGGacacccuccUCACGgcggCCCCgGCg -3'
miRNA:   3'- uGgCGGUAUCAUC---------AGUGCa---GGGGgCG- -5'
3804 3' -56.8 NC_001650.1 + 106211 0.71 0.679621
Target:  5'- uACCcuagCGUAGUAGcaccccUCGgGUCCCCCGCa -3'
miRNA:   3'- -UGGcg--GUAUCAUC------AGUgCAGGGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 131972 0.71 0.689509
Target:  5'- gGCCaGCUGUGG-AG-CACGcugCCCCCGCu -3'
miRNA:   3'- -UGG-CGGUAUCaUCaGUGCa--GGGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 112447 0.71 0.689509
Target:  5'- cACCuCUAUGGUGGcCGCGUCCaCCaCGUg -3'
miRNA:   3'- -UGGcGGUAUCAUCaGUGCAGG-GG-GCG- -5'
3804 3' -56.8 NC_001650.1 + 153115 0.7 0.708165
Target:  5'- gGCgGCUAUGGUAucGUCuauggaguugaacACG-CCCCCGCa -3'
miRNA:   3'- -UGgCGGUAUCAU--CAG-------------UGCaGGGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 160489 0.7 0.718867
Target:  5'- cGCCGCgAggacgcgcaGGaGGUCACGUuacaggagaCCCCCGCg -3'
miRNA:   3'- -UGGCGgUa--------UCaUCAGUGCA---------GGGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 131499 0.7 0.718867
Target:  5'- gACCGCCAccGUGGcCcccuggacCGUCuCCCCGCu -3'
miRNA:   3'- -UGGCGGUauCAUCaGu-------GCAG-GGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 155607 0.7 0.718867
Target:  5'- gGCCG-CGUAGUuggCGCGcgCCCCCGUg -3'
miRNA:   3'- -UGGCgGUAUCAucaGUGCa-GGGGGCG- -5'
3804 3' -56.8 NC_001650.1 + 156768 0.7 0.747588
Target:  5'- cACCGCUAUugaucaucuuGUAGcCcUGUUCCCCGCa -3'
miRNA:   3'- -UGGCGGUAu---------CAUCaGuGCAGGGGGCG- -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.