miRNA display CGI


Results 1 - 20 of 27 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
31185 3' -58 NC_006560.1 + 51170 0.66 0.83461
Target:  5'- -cGCCUuucuggggcGCGUcCUCGAcGUCCUgGCGg -3'
miRNA:   3'- uuCGGGu--------CGCA-GAGCUaCAGGAgCGC- -5'
31185 3' -58 NC_006560.1 + 64789 0.69 0.665118
Target:  5'- cGGCCCGGCGcuccgCUCccccgCCUCGCGg -3'
miRNA:   3'- uUCGGGUCGCa----GAGcuacaGGAGCGC- -5'
31185 3' -58 NC_006560.1 + 127555 0.68 0.705332
Target:  5'- -cGCCCGguacGCGUCgagCG-UGUCgCUCGCGc -3'
miRNA:   3'- uuCGGGU----CGCAGa--GCuACAG-GAGCGC- -5'
31185 3' -58 NC_006560.1 + 26093 0.68 0.725108
Target:  5'- cGGCCCGGCG-CggCGggGgCUUCGCGg -3'
miRNA:   3'- uUCGGGUCGCaGa-GCuaCaGGAGCGC- -5'
31185 3' -58 NC_006560.1 + 78080 0.68 0.725108
Target:  5'- cGGCCgCGGCG-CUCGggGgCCUCGaCGg -3'
miRNA:   3'- uUCGG-GUCGCaGAGCuaCaGGAGC-GC- -5'
31185 3' -58 NC_006560.1 + 100238 0.67 0.734881
Target:  5'- cGAGCUCGGC--CUCGgcGgCCUCGCGg -3'
miRNA:   3'- -UUCGGGUCGcaGAGCuaCaGGAGCGC- -5'
31185 3' -58 NC_006560.1 + 55391 0.67 0.763637
Target:  5'- cGAGCCggcaGGUGUaCUCGcUGUgCUCGCGc -3'
miRNA:   3'- -UUCGGg---UCGCA-GAGCuACAgGAGCGC- -5'
31185 3' -58 NC_006560.1 + 130512 0.67 0.773004
Target:  5'- -cGCCCGGCGgccggC-CGGUGgcgCCgCGCGg -3'
miRNA:   3'- uuCGGGUCGCa----GaGCUACa--GGaGCGC- -5'
31185 3' -58 NC_006560.1 + 124809 0.66 0.790451
Target:  5'- cGAGCCCGGCGacgcgcccgucgCgggcgugcacgcgugCGggGUCCUCGUGg -3'
miRNA:   3'- -UUCGGGUCGCa-----------Ga--------------GCuaCAGGAGCGC- -5'
31185 3' -58 NC_006560.1 + 18919 0.69 0.654978
Target:  5'- cGGCCCGGCGUCcgugcgCGgcGUgCCgCGCGg -3'
miRNA:   3'- uUCGGGUCGCAGa-----GCuaCA-GGaGCGC- -5'
31185 3' -58 NC_006560.1 + 130288 0.7 0.614315
Target:  5'- cGGGCCCGGCGagaUCUCGGccgCCggCGCGg -3'
miRNA:   3'- -UUCGGGUCGC---AGAGCUacaGGa-GCGC- -5'
31185 3' -58 NC_006560.1 + 41662 0.7 0.604164
Target:  5'- -cGCCC-GCGUC-CGGUGcCgUCGCGg -3'
miRNA:   3'- uuCGGGuCGCAGaGCUACaGgAGCGC- -5'
31185 3' -58 NC_006560.1 + 248 0.75 0.310753
Target:  5'- cGGGCCCcaacuGCGUCUCGGUGgaggCCgggUCGCGa -3'
miRNA:   3'- -UUCGGGu----CGCAGAGCUACa---GG---AGCGC- -5'
31185 3' -58 NC_006560.1 + 17347 0.75 0.34775
Target:  5'- cGAGCCCGGCGUCagggcgCGGUGga-UCGCGa -3'
miRNA:   3'- -UUCGGGUCGCAGa-----GCUACaggAGCGC- -5'
31185 3' -58 NC_006560.1 + 70826 0.72 0.448688
Target:  5'- -cGCCgCGGCgGUC-CGGgagGUCCUCGCGg -3'
miRNA:   3'- uuCGG-GUCG-CAGaGCUa--CAGGAGCGC- -5'
31185 3' -58 NC_006560.1 + 34699 0.72 0.457814
Target:  5'- -cGCCgGGCGUCUCGGUGgcucUCUCGgGc -3'
miRNA:   3'- uuCGGgUCGCAGAGCUACa---GGAGCgC- -5'
31185 3' -58 NC_006560.1 + 62882 0.72 0.48577
Target:  5'- gGGGCgCAGCGUCUCGccGUCg-CGCGu -3'
miRNA:   3'- -UUCGgGUCGCAGAGCuaCAGgaGCGC- -5'
31185 3' -58 NC_006560.1 + 32748 0.71 0.504851
Target:  5'- gGGGCCCGGCGcgccggccggggUCUCGggGUCCgaggGCGa -3'
miRNA:   3'- -UUCGGGUCGC------------AGAGCuaCAGGag--CGC- -5'
31185 3' -58 NC_006560.1 + 62390 0.7 0.57386
Target:  5'- cGGCuCCGGUG-CUCGAgggggUGUCCaUCGCGa -3'
miRNA:   3'- uUCG-GGUCGCaGAGCU-----ACAGG-AGCGC- -5'
31185 3' -58 NC_006560.1 + 105070 0.7 0.583929
Target:  5'- -uGCuCCucgcGgGUCUCGccGUCCUCGCGg -3'
miRNA:   3'- uuCG-GGu---CgCAGAGCuaCAGGAGCGC- -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.