miRNA display CGI


Results 1 - 20 of 77 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
19509 3' -61.7 NC_004685.1 + 57923 0.65 0.448363
Target:  5'- uGGCUgcguGCAGCUCCucGCGGCgcuccaucgggcacAGCGGg -3'
miRNA:   3'- gCCGGu---CGUCGAGGc-UGCCG--------------UCGUCa -5'
19509 3' -61.7 NC_004685.1 + 1896 0.66 0.441838
Target:  5'- aGGCC-GCGGCcgugcCCGcuGCGGCcGCGGUu -3'
miRNA:   3'- gCCGGuCGUCGa----GGC--UGCCGuCGUCA- -5'
19509 3' -61.7 NC_004685.1 + 36372 0.66 0.441838
Target:  5'- gCGGUCGccGC-GC-CCGACGGCGGCcuGGg -3'
miRNA:   3'- -GCCGGU--CGuCGaGGCUGCCGUCG--UCa -5'
19509 3' -61.7 NC_004685.1 + 35101 0.66 0.441838
Target:  5'- uCGGCCAGgcgcuCGGCagCGuCGGCcGCGGUc -3'
miRNA:   3'- -GCCGGUC-----GUCGagGCuGCCGuCGUCA- -5'
19509 3' -61.7 NC_004685.1 + 17100 0.66 0.441838
Target:  5'- uGGUCGagucGCAGCgguucggcgCCGACGGCaacgAGCGGc -3'
miRNA:   3'- gCCGGU----CGUCGa--------GGCUGCCG----UCGUCa -5'
19509 3' -61.7 NC_004685.1 + 66185 0.66 0.44091
Target:  5'- uGGCCgcagaacAGCAGCUUCGACgccacgcugGGCAcCAGa -3'
miRNA:   3'- gCCGG-------UCGUCGAGGCUG---------CCGUcGUCa -5'
19509 3' -61.7 NC_004685.1 + 4243 0.66 0.43261
Target:  5'- uCGGCCAGCuuCUCCacCGcGCGGuCAGUg -3'
miRNA:   3'- -GCCGGUCGucGAGGcuGC-CGUC-GUCA- -5'
19509 3' -61.7 NC_004685.1 + 31823 0.66 0.43261
Target:  5'- gCGGCUGGCugacGCUCCGAC-GCcGCuGUa -3'
miRNA:   3'- -GCCGGUCGu---CGAGGCUGcCGuCGuCA- -5'
19509 3' -61.7 NC_004685.1 + 24487 0.66 0.43261
Target:  5'- uCGGCC-GCGGCguacaggucgCCGGCGuGCGcGUAGUu -3'
miRNA:   3'- -GCCGGuCGUCGa---------GGCUGC-CGU-CGUCA- -5'
19509 3' -61.7 NC_004685.1 + 55936 0.66 0.43261
Target:  5'- -cGCCAGCAGCagcCCGGCGaugccguccuGCcAGCGGUc -3'
miRNA:   3'- gcCGGUCGUCGa--GGCUGC----------CG-UCGUCA- -5'
19509 3' -61.7 NC_004685.1 + 50641 0.66 0.43261
Target:  5'- gCGGUCGGgAuGCUCCGACGGU-GCc-- -3'
miRNA:   3'- -GCCGGUCgU-CGAGGCUGCCGuCGuca -5'
19509 3' -61.7 NC_004685.1 + 41931 0.66 0.424402
Target:  5'- aCGGCCAGCAGUggacccgagaggaaaUCCacgaggcacucaagGACGGCcGCGu- -3'
miRNA:   3'- -GCCGGUCGUCG---------------AGG--------------CUGCCGuCGUca -5'
19509 3' -61.7 NC_004685.1 + 66794 0.66 0.423496
Target:  5'- gGGCCGGguGC-CCGAUccuGGcCAGCGc- -3'
miRNA:   3'- gCCGGUCguCGaGGCUG---CC-GUCGUca -5'
19509 3' -61.7 NC_004685.1 + 56365 0.66 0.423496
Target:  5'- -cGCCAGa--CUCCG-CGGCGGCGGc -3'
miRNA:   3'- gcCGGUCgucGAGGCuGCCGUCGUCa -5'
19509 3' -61.7 NC_004685.1 + 3398 0.66 0.423496
Target:  5'- gCGGaCCAGCGcUUCCGGCGacCAGCGGc -3'
miRNA:   3'- -GCC-GGUCGUcGAGGCUGCc-GUCGUCa -5'
19509 3' -61.7 NC_004685.1 + 47697 0.66 0.423496
Target:  5'- uCGGCC-GCGGCUuuGGCGGggacuucgGGUAGg -3'
miRNA:   3'- -GCCGGuCGUCGAggCUGCCg-------UCGUCa -5'
19509 3' -61.7 NC_004685.1 + 45095 0.66 0.422591
Target:  5'- uGGCCggacuacGGCGGCUcaCCGAUGGcCAGCc-- -3'
miRNA:   3'- gCCGG-------UCGUCGA--GGCUGCC-GUCGuca -5'
19509 3' -61.7 NC_004685.1 + 63161 0.66 0.418083
Target:  5'- uGGCCGGuCuugaugucgaccaccGGCUCgGGCGGguGCAc- -3'
miRNA:   3'- gCCGGUC-G---------------UCGAGgCUGCCguCGUca -5'
19509 3' -61.7 NC_004685.1 + 38784 0.66 0.414498
Target:  5'- uCGGUCGGCGGUucgcacaccaUCCG-CGGUcGCAGc -3'
miRNA:   3'- -GCCGGUCGUCG----------AGGCuGCCGuCGUCa -5'
19509 3' -61.7 NC_004685.1 + 30531 0.66 0.414498
Target:  5'- gGGCCGGuCAGUcagaUCGAcccagauaagguCGGCGGCAGUc -3'
miRNA:   3'- gCCGGUC-GUCGa---GGCU------------GCCGUCGUCA- -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.