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 + 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 + 55152 0.66 0.998673
Target:  5'- ---aGCAGCacUGCGguUACCCGGg -3'
miRNA:   3'- aaugCGUCG--ACGCauAUGGGUC- -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 + 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 + 19118 0.67 0.995068
Target:  5'- -cGCGUguuuacAGCaGCGUAUGCCCGc -3'
miRNA:   3'- aaUGCG------UCGaCGCAUAUGGGUc -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 - 115413 0.67 0.994184
Target:  5'- --gUGCAGCUGCaagucgAUACCCAu -3'
miRNA:   3'- aauGCGUCGACGca----UAUGGGUc -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 - 114379 0.67 0.993175
Target:  5'- -aAUGCAGCacgguUGCGUGUACCa-- -3'
miRNA:   3'- aaUGCGUCG-----ACGCAUAUGGguc -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 - 130917 0.68 0.992032
Target:  5'- -gACGguGCUGCccagcuggGCCCAGg -3'
miRNA:   3'- aaUGCguCGACGcaua----UGGGUC- -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 + 23617 0.68 0.989293
Target:  5'- aUACcCAGCUGgGUAauccaguagguaUACCCAGg -3'
miRNA:   3'- aAUGcGUCGACgCAU------------AUGGGUC- -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 - 84851 0.69 0.985869
Target:  5'- aUugGguGUUGUGUAUAUCCGc -3'
miRNA:   3'- aAugCguCGACGCAUAUGGGUc -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 - 121970 0.7 0.963459
Target:  5'- uUUACGCAgGgUGCGgugcUGCCCAGg -3'
miRNA:   3'- -AAUGCGU-CgACGCau--AUGGGUC- -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 - 119393 0.71 0.955263
Target:  5'- aUACcCAGCUGgGUcUACCCAGc -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 - 87025 0.72 0.935339
Target:  5'- ---aGCGGCgggagUGUGUGUGCCCGGg -3'
miRNA:   3'- aaugCGUCG-----ACGCAUAUGGGUC- -5'
MIMAT0002185 kshv-miR-K12-9 -46.8 NC_003409.1 - 74596 0.72 0.935339
Target:  5'- --uUGCAGUUGCGUAUACUCu- -3'
miRNA:   3'- aauGCGUCGACGCAUAUGGGuc -5'
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 - 10211 0.72 0.923552
Target:  5'- --cUGCAGCUGCGUGUAagaCAGg -3'
miRNA:   3'- aauGCGUCGACGCAUAUgg-GUC- -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'
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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.