miRNA display CGI


Results 1 - 20 of 127 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
28032 5' -64.1 NC_005887.1 + 345 0.66 0.260523
Target:  5'- gCGGCGacacuCGACGUgGGCcGCaggCCGUGCUg -3'
miRNA:   3'- aGCCGU-----GCUGCAgCCGcCG---GGCGCGA- -5'
28032 5' -64.1 NC_005887.1 + 585 0.71 0.116704
Target:  5'- gUCGGCACGACcUCGaucGUGgucuucgaccagaGCCCGCGCg -3'
miRNA:   3'- -AGCCGUGCUGcAGC---CGC-------------CGGGCGCGa -5'
28032 5' -64.1 NC_005887.1 + 860 0.67 0.218931
Target:  5'- -aGGUGCccGugGaCGcGUGGCCCGCGCc -3'
miRNA:   3'- agCCGUG--CugCaGC-CGCCGGGCGCGa -5'
28032 5' -64.1 NC_005887.1 + 1435 0.69 0.160844
Target:  5'- cUCGGUGCGcGCGcgguagcccuUCGGCGGCUCGuCGUc -3'
miRNA:   3'- -AGCCGUGC-UGC----------AGCCGCCGGGC-GCGa -5'
28032 5' -64.1 NC_005887.1 + 1486 0.71 0.117017
Target:  5'- aCGGCguGCGGCGcUCGcGCGGCgcggCCGUGCg -3'
miRNA:   3'- aGCCG--UGCUGC-AGC-CGCCG----GGCGCGa -5'
28032 5' -64.1 NC_005887.1 + 1984 0.73 0.082252
Target:  5'- cUCGcGCGCGACGgCGGCacGG-CCGCGCUc -3'
miRNA:   3'- -AGC-CGUGCUGCaGCCG--CCgGGCGCGA- -5'
28032 5' -64.1 NC_005887.1 + 2507 0.71 0.113916
Target:  5'- gCGGUcgauUGAUGUgcgaCGGCGGCCCGuCGCg -3'
miRNA:   3'- aGCCGu---GCUGCA----GCCGCCGGGC-GCGa -5'
28032 5' -64.1 NC_005887.1 + 3493 0.71 0.112092
Target:  5'- aUCGaGCACGACGUCGGCaagGGCaucgucuaccgcaaCGUGCc -3'
miRNA:   3'- -AGC-CGUGCUGCAGCCG---CCGg-------------GCGCGa -5'
28032 5' -64.1 NC_005887.1 + 3856 0.68 0.178476
Target:  5'- gUCGGCAcCGACGauguguacggCGGCaGCCCG-GCa -3'
miRNA:   3'- -AGCCGU-GCUGCa---------GCCGcCGGGCgCGa -5'
28032 5' -64.1 NC_005887.1 + 4620 0.7 0.123457
Target:  5'- cUCGcCGCGGCGcCGGUGGCCgccgGCGCg -3'
miRNA:   3'- -AGCcGUGCUGCaGCCGCCGGg---CGCGa -5'
28032 5' -64.1 NC_005887.1 + 5133 0.7 0.13697
Target:  5'- cUCGGCAugaccgcgcugccCGACGUCGGCGcGCCgcUGaUGCUg -3'
miRNA:   3'- -AGCCGU-------------GCUGCAGCCGC-CGG--GC-GCGA- -5'
28032 5' -64.1 NC_005887.1 + 5827 0.7 0.137333
Target:  5'- gUCGGCGCGG-GUCGcgaagggcgaaGCGGagcucaCCGCGCUg -3'
miRNA:   3'- -AGCCGUGCUgCAGC-----------CGCCg-----GGCGCGA- -5'
28032 5' -64.1 NC_005887.1 + 6477 0.68 0.187921
Target:  5'- -gGGCGCGGCGUcgCGGUGucuGCCgaGCGCa -3'
miRNA:   3'- agCCGUGCUGCA--GCCGC---CGGg-CGCGa -5'
28032 5' -64.1 NC_005887.1 + 6858 0.68 0.192807
Target:  5'- gUCGGaccuCGCGACGUCGGCcaa-CGCGCa -3'
miRNA:   3'- -AGCC----GUGCUGCAGCCGccggGCGCGa -5'
28032 5' -64.1 NC_005887.1 + 7655 0.72 0.094272
Target:  5'- --aGCGCGACGaCGGCcGCCCGCuGCUg -3'
miRNA:   3'- agcCGUGCUGCaGCCGcCGGGCG-CGA- -5'
28032 5' -64.1 NC_005887.1 + 8697 0.67 0.236018
Target:  5'- -gGGCcCGGCGauccgccgCGGCGGUaaGCGCUu -3'
miRNA:   3'- agCCGuGCUGCa-------GCCGCCGggCGCGA- -5'
28032 5' -64.1 NC_005887.1 + 9025 0.67 0.213475
Target:  5'- cUCuGCAgcccgUGACGuuugUCGGCGGCCCGUucGCg -3'
miRNA:   3'- -AGcCGU-----GCUGC----AGCCGCCGGGCG--CGa -5'
28032 5' -64.1 NC_005887.1 + 9600 0.7 0.133736
Target:  5'- aUGGCGCG-CGcCGGCGcGCacgcgagcgCCGCGCUa -3'
miRNA:   3'- aGCCGUGCuGCaGCCGC-CG---------GGCGCGA- -5'
28032 5' -64.1 NC_005887.1 + 9613 0.66 0.24802
Target:  5'- aUCGGCuuugccugaugcGCGAC--CGGUGGCUCGCGa- -3'
miRNA:   3'- -AGCCG------------UGCUGcaGCCGCCGGGCGCga -5'
28032 5' -64.1 NC_005887.1 + 9786 0.69 0.160844
Target:  5'- aUCGGCAUGACGggcgaugagUgGGUgauugGGCCCGCGa- -3'
miRNA:   3'- -AGCCGUGCUGC---------AgCCG-----CCGGGCGCga -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.