miRNA display CGI


Results 1 - 20 of 28 are showing below:
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Acc. No. Name Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 + 10062 0.72 0.935339
Target:  5'- -cACGCAGCUGCaGUuUGCCUAc -3'
miRNA:   3'- aaUGCGUCGACG-CAuAUGGGUc -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 + 19118 0.67 0.995068
Target:  5'- -cGCGUguuuacAGCaGCGUAUGCCCGc -3'
miRNA:   3'- aaUGCG------UCGaCGCAUAUGGGUc -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 + 23617 0.68 0.989293
Target:  5'- aUACcCAGCUGgGUAauccaguagguaUACCCAGg -3'
miRNA:   3'- aAUGcGUCGACgCAU------------AUGGGUC- -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 + 23658 0.76 0.734341
Target:  5'- -aACcCAGCUGgGUAUACCCAGc -3'
miRNA:   3'- aaUGcGUCGACgCAUAUGGGUC- -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 + 26365 0.73 0.896306
Target:  5'- -gGCGCAGggGUGUAUGCCCu- -3'
miRNA:   3'- aaUGCGUCgaCGCAUAUGGGuc -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 + 47330 0.67 0.995068
Target:  5'- cUGCaGCAGCUGUugGUGUACCaCAu -3'
miRNA:   3'- aAUG-CGUCGACG--CAUAUGG-GUc -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 + 55152 0.66 0.998673
Target:  5'- ---aGCAGCacUGCGguUACCCGGg -3'
miRNA:   3'- aaugCGUCG--ACGCauAUGGGUC- -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 + 86131 0.68 0.990742
Target:  5'- --uUGCGGCUGUG-GUugCCAGg -3'
miRNA:   3'- aauGCGUCGACGCaUAugGGUC- -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 + 87921 0.66 0.998673
Target:  5'- gUGCuGCGGCUuggGCGgcgccGUGCCCGGu -3'
miRNA:   3'- aAUG-CGUCGA---CGCa----UAUGGGUC- -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 + 119184 1.01 0.036813
Target:  5'- uUUACGCAGCUGCGUAUACCCAGc -3'
miRNA:   3'- -AAUGCGUCGACGCAUAUGGGUC- -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 + 119226 0.84 0.355563
Target:  5'- uUUACGCAGCUGgGUAgACCCAGc -3'
miRNA:   3'- -AAUGCGUCGACgCAUaUGGGUC- -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 + 120311 0.75 0.798462
Target:  5'- aUGCGCGGCUGCGUGguauCUCAu -3'
miRNA:   3'- aAUGCGUCGACGCAUau--GGGUc -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 + 128044 0.69 0.979241
Target:  5'- -gGCGCGGUUGgGgGUGCCCGc -3'
miRNA:   3'- aaUGCGUCGACgCaUAUGGGUc -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 - 10211 0.72 0.923552
Target:  5'- --cUGCAGCUGCGUGUAagaCAGg -3'
miRNA:   3'- aauGCGUCGACGCAUAUgg-GUC- -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 - 18219 0.76 0.767096
Target:  5'- -aGCuuGGCUGCGUAUGCCCGc -3'
miRNA:   3'- aaUGcgUCGACGCAUAUGGGUc -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 - 23769 0.71 0.955263
Target:  5'- aUUACcCAGCUGgGUAUACCUAc -3'
miRNA:   3'- -AAUGcGUCGACgCAUAUGGGUc -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 - 23820 0.82 0.421873
Target:  5'- --uUGCAGCUGgGUAUACCCAGc -3'
miRNA:   3'- aauGCGUCGACgCAUAUGGGUC- -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 - 34514 0.66 0.997089
Target:  5'- cUGCGCGGCgaGCucAUGCCCAc -3'
miRNA:   3'- aAUGCGUCGa-CGcaUAUGGGUc -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 - 43790 0.73 0.896306
Target:  5'- -aACGUAGCUgGCGUAggccgcggGCCCGGa -3'
miRNA:   3'- aaUGCGUCGA-CGCAUa-------UGGGUC- -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 - 74596 0.72 0.935339
Target:  5'- --uUGCAGUUGCGUAUACUCu- -3'
miRNA:   3'- aauGCGUCGACGCAUAUGGGuc -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.