miRNA display CGI


Results 1 - 20 of 29 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
30438 5' -58.5 NC_006548.1 + 2870 0.66 0.452659
Target:  5'- -cGCCUgcaGGCGCUCGucgaaggcGAugUUGUCGGCc -3'
miRNA:   3'- ucUGGG---UCGCGGGU--------CUugAGCAGCCG- -5'
30438 5' -58.5 NC_006548.1 + 6286 0.67 0.41408
Target:  5'- -cGCCCAcggucgaguuGUGCCgGGAGCUUG-CGGUg -3'
miRNA:   3'- ucUGGGU----------CGCGGgUCUUGAGCaGCCG- -5'
30438 5' -58.5 NC_006548.1 + 6490 0.67 0.394653
Target:  5'- cGGGCUCGGUcgaaaacGCCCGGAACaUCaUCGaGCg -3'
miRNA:   3'- -UCUGGGUCG-------CGGGUCUUG-AGcAGC-CG- -5'
30438 5' -58.5 NC_006548.1 + 7349 0.73 0.157253
Target:  5'- -cACCCAGCGCCUGGuugacCUCGacCGGCa -3'
miRNA:   3'- ucUGGGUCGCGGGUCuu---GAGCa-GCCG- -5'
30438 5' -58.5 NC_006548.1 + 9344 0.7 0.247851
Target:  5'- ---gCCAGCGUcuCCAGA--UCGUCGGCu -3'
miRNA:   3'- ucugGGUCGCG--GGUCUugAGCAGCCG- -5'
30438 5' -58.5 NC_006548.1 + 12442 0.66 0.423536
Target:  5'- uGACCagcgcgcgCAGUGCCCAGccuggauugaacGGCUgGUUGGUg -3'
miRNA:   3'- uCUGG--------GUCGCGGGUC------------UUGAgCAGCCG- -5'
30438 5' -58.5 NC_006548.1 + 12630 0.71 0.229196
Target:  5'- cGGCCgAGCGCCCGGcguugaagcGCUCGaCGGa -3'
miRNA:   3'- uCUGGgUCGCGGGUCu--------UGAGCaGCCg -5'
30438 5' -58.5 NC_006548.1 + 13138 0.66 0.432156
Target:  5'- uGGACCagGGCGUCCuGAAgggccugggcgcgUUCGUUGGUg -3'
miRNA:   3'- -UCUGGg-UCGCGGGuCUU-------------GAGCAGCCG- -5'
30438 5' -58.5 NC_006548.1 + 13359 0.67 0.41408
Target:  5'- cGGGCaaaCCGGCGCCgAGGGCgguguugaaGUCGcGCa -3'
miRNA:   3'- -UCUG---GGUCGCGGgUCUUGag-------CAGC-CG- -5'
30438 5' -58.5 NC_006548.1 + 16111 1.12 0.000195
Target:  5'- cAGACCCAGCGCCCAGAACUCGUCGGCa -3'
miRNA:   3'- -UCUGGGUCGCGGGUCUUGAGCAGCCG- -5'
30438 5' -58.5 NC_006548.1 + 16823 0.71 0.223247
Target:  5'- cAGGCCCAGU-CCaUAGGGCUCaucgucguuGUCGGCg -3'
miRNA:   3'- -UCUGGGUCGcGG-GUCUUGAG---------CAGCCG- -5'
30438 5' -58.5 NC_006548.1 + 17445 0.67 0.386509
Target:  5'- cGACCCagcagcggcgauGGCGCCgCAGcuggccgaAGCgaugcagccugUCGUCGGCa -3'
miRNA:   3'- uCUGGG------------UCGCGG-GUC--------UUG-----------AGCAGCCG- -5'
30438 5' -58.5 NC_006548.1 + 18574 0.68 0.319138
Target:  5'- uGGACCCGGCGgCCAcgacGGAC-CGggucaUUGGCg -3'
miRNA:   3'- -UCUGGGUCGCgGGU----CUUGaGC-----AGCCG- -5'
30438 5' -58.5 NC_006548.1 + 19980 0.74 0.13694
Target:  5'- cGAUCCGGCGCUCAGcgaggccccGCUCGucaUCGGCc -3'
miRNA:   3'- uCUGGGUCGCGGGUCu--------UGAGC---AGCCG- -5'
30438 5' -58.5 NC_006548.1 + 20469 0.7 0.260974
Target:  5'- cGGugCCAGUGCCCAGg---CGUCGu- -3'
miRNA:   3'- -UCugGGUCGCGGGUCuugaGCAGCcg -5'
30438 5' -58.5 NC_006548.1 + 20726 0.67 0.41408
Target:  5'- uGGCCCAGCaaaaaGCCCAGGAacaUCGcaacgaGGUc -3'
miRNA:   3'- uCUGGGUCG-----CGGGUCUUg--AGCag----CCG- -5'
30438 5' -58.5 NC_006548.1 + 21194 0.67 0.40383
Target:  5'- cGGCCUGGcCGCCCAGGcugccgguagcACUgCGcugcugaUCGGCa -3'
miRNA:   3'- uCUGGGUC-GCGGGUCU-----------UGA-GC-------AGCCG- -5'
30438 5' -58.5 NC_006548.1 + 21640 0.66 0.442829
Target:  5'- -cGCCCAGgGCuucaccgucCCGGAAaccCUgGUCGGCc -3'
miRNA:   3'- ucUGGGUCgCG---------GGUCUU---GAgCAGCCG- -5'
30438 5' -58.5 NC_006548.1 + 22859 0.8 0.051752
Target:  5'- cAGcACCUgguAGCGCCCGGc-CUCGUCGGCg -3'
miRNA:   3'- -UC-UGGG---UCGCGGGUCuuGAGCAGCCG- -5'
30438 5' -58.5 NC_006548.1 + 24583 0.67 0.395564
Target:  5'- gAGGCCCAGauCGCCaCAGcGAUguUCuUCGGCa -3'
miRNA:   3'- -UCUGGGUC--GCGG-GUC-UUG--AGcAGCCG- -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.