miRNA display CGI


Results 1 - 20 of 70 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
19000 5' -60.3 NC_004684.1 + 701 0.71 0.302292
Target:  5'- gCCAgGUCGUCCAGGucaggcGGCCcggaGGUCaGCu -3'
miRNA:   3'- -GGUgCAGCAGGUCC------UCGG----CCAGcCGc -5'
19000 5' -60.3 NC_004684.1 + 848 0.67 0.50492
Target:  5'- uCgGCGgUGUCCAGGAgcGCCGccagggcGUCGGUGu -3'
miRNA:   3'- -GgUGCaGCAGGUCCU--CGGC-------CAGCCGC- -5'
19000 5' -60.3 NC_004684.1 + 2294 0.66 0.535507
Target:  5'- aCCAUGUUGUCCucGGcguaguGGCCGuG-CGGCa -3'
miRNA:   3'- -GGUGCAGCAGGu-CC------UCGGC-CaGCCGc -5'
19000 5' -60.3 NC_004684.1 + 2375 0.69 0.404329
Target:  5'- aCCGCGUCGUggcCCA--GGCUGG-CGGCa -3'
miRNA:   3'- -GGUGCAGCA---GGUccUCGGCCaGCCGc -5'
19000 5' -60.3 NC_004684.1 + 3638 0.66 0.555583
Target:  5'- gCGCGcCacCUGGGucauGCCGGUCGGCa -3'
miRNA:   3'- gGUGCaGcaGGUCCu---CGGCCAGCCGc -5'
19000 5' -60.3 NC_004684.1 + 6350 0.67 0.515692
Target:  5'- -gGCGUUGUCCAu--GUCGG-CGGCGa -3'
miRNA:   3'- ggUGCAGCAGGUccuCGGCCaGCCGC- -5'
19000 5' -60.3 NC_004684.1 + 6817 0.66 0.535507
Target:  5'- aCGcCGUCGgCCuggAGGAGCUGGccuaCGGCGc -3'
miRNA:   3'- gGU-GCAGCaGG---UCCUCGGCCa---GCCGC- -5'
19000 5' -60.3 NC_004684.1 + 8208 0.66 0.545515
Target:  5'- aCGCgGUCGUCCucGucaaugcuGCCGGUgGGCa -3'
miRNA:   3'- gGUG-CAGCAGGucCu-------CGGCCAgCCGc -5'
19000 5' -60.3 NC_004684.1 + 8939 0.66 0.555583
Target:  5'- -gGCGacaCGUCCAGGcccauGGCCaGUCgGGCGa -3'
miRNA:   3'- ggUGCa--GCAGGUCC-----UCGGcCAG-CCGC- -5'
19000 5' -60.3 NC_004684.1 + 11532 0.68 0.437091
Target:  5'- gCGCGUCGgcccggucagcUCCGGGuuggcgaagugggcGGCCGGguagguggUCGGCGu -3'
miRNA:   3'- gGUGCAGC-----------AGGUCC--------------UCGGCC--------AGCCGC- -5'
19000 5' -60.3 NC_004684.1 + 11684 0.66 0.555583
Target:  5'- gC-CGUCGUCCAGGcGCac--CGGCGg -3'
miRNA:   3'- gGuGCAGCAGGUCCuCGgccaGCCGC- -5'
19000 5' -60.3 NC_004684.1 + 12919 0.68 0.452647
Target:  5'- aCCACGUCGgcagcagagccgccgUCCucGGGCgCGucGUCGGCGg -3'
miRNA:   3'- -GGUGCAGC---------------AGGucCUCG-GC--CAGCCGC- -5'
19000 5' -60.3 NC_004684.1 + 13033 0.75 0.163648
Target:  5'- uUACGUCG-CC-GG-GCCGGUCGGCu -3'
miRNA:   3'- gGUGCAGCaGGuCCuCGGCCAGCCGc -5'
19000 5' -60.3 NC_004684.1 + 13045 0.71 0.279763
Target:  5'- gCCGCGUCGg-CGGGAGCaccgggggugccgaCGG-CGGCGa -3'
miRNA:   3'- -GGUGCAGCagGUCCUCG--------------GCCaGCCGC- -5'
19000 5' -60.3 NC_004684.1 + 13454 0.73 0.226788
Target:  5'- aCCACGUCGgauggugauuUCCGGGAgGCUgaucaGGUCGGuCGg -3'
miRNA:   3'- -GGUGCAGC----------AGGUCCU-CGG-----CCAGCC-GC- -5'
19000 5' -60.3 NC_004684.1 + 13674 0.66 0.524574
Target:  5'- gCACG--GUCCAGGAcauggugGCCGGUUcgGGCa -3'
miRNA:   3'- gGUGCagCAGGUCCU-------CGGCCAG--CCGc -5'
19000 5' -60.3 NC_004684.1 + 14090 0.66 0.555583
Target:  5'- gCCACugcaccgUGUCCAGGuGGCCGGgcuGGCc -3'
miRNA:   3'- -GGUGca-----GCAGGUCC-UCGGCCag-CCGc -5'
19000 5' -60.3 NC_004684.1 + 15128 1.1 0.000458
Target:  5'- cCCACGUCGUCCAGGAGCCGGUCGGCGa -3'
miRNA:   3'- -GGUGCAGCAGGUCCUCGGCCAGCCGC- -5'
19000 5' -60.3 NC_004684.1 + 15386 0.68 0.439814
Target:  5'- aCCGCGUCGcgCCAGccaaacgucGGGCUGGU-GGCc -3'
miRNA:   3'- -GGUGCAGCa-GGUC---------CUCGGCCAgCCGc -5'
19000 5' -60.3 NC_004684.1 + 15805 0.69 0.394891
Target:  5'- gCugGUCGgugucUCCGGGAgcacgauGCCGGU-GGCGu -3'
miRNA:   3'- gGugCAGC-----AGGUCCU-------CGGCCAgCCGC- -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.