miRNA display CGI


Results 1 - 17 of 17 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
20604 5' -55 NC_004688.1 + 84412 0.66 0.866542
Target:  5'- cGCAACCUcaccgccguacuugaUGGUUCGCUG-GAugAGCUg- -3'
miRNA:   3'- -CGUUGGA---------------ACCGGGCGACgCU--UCGAac -5'
20604 5' -55 NC_004688.1 + 86950 0.66 0.847252
Target:  5'- gGCAACgUUGccgaGUCCGCcgGCGAGGCc-- -3'
miRNA:   3'- -CGUUGgAAC----CGGGCGa-CGCUUCGaac -5'
20604 5' -55 NC_004688.1 + 43042 0.66 0.846421
Target:  5'- gGCAAuauCCUUGGCCuCGCgcugcuccaucacUGCG-AGCUg- -3'
miRNA:   3'- -CGUU---GGAACCGG-GCG-------------ACGCuUCGAac -5'
20604 5' -55 NC_004688.1 + 3323 0.67 0.806985
Target:  5'- cGCAACgUU-GUCCGCUGCGGaacgugcggccgacaAGCUUu -3'
miRNA:   3'- -CGUUGgAAcCGGGCGACGCU---------------UCGAAc -5'
20604 5' -55 NC_004688.1 + 62410 0.67 0.803299
Target:  5'- -gAACCUgaaucccaugGGCCCgGCcagaGUGAAGCUUGa -3'
miRNA:   3'- cgUUGGAa---------CCGGG-CGa---CGCUUCGAAC- -5'
20604 5' -55 NC_004688.1 + 37358 0.68 0.79397
Target:  5'- uGCgAGCCUUGGUgcacgCCGCgcccugcgGCGggGCa-- -3'
miRNA:   3'- -CG-UUGGAACCG-----GGCGa-------CGCuuCGaac -5'
20604 5' -55 NC_004688.1 + 61686 0.68 0.784483
Target:  5'- cGCAGCCUUGGacuuCUCGCcggGUGGAGUg-- -3'
miRNA:   3'- -CGUUGGAACC----GGGCGa--CGCUUCGaac -5'
20604 5' -55 NC_004688.1 + 94359 0.68 0.774849
Target:  5'- aCuuCCUc-GCCCGCUGCGAccaAGCUUc -3'
miRNA:   3'- cGuuGGAacCGGGCGACGCU---UCGAAc -5'
20604 5' -55 NC_004688.1 + 12027 0.69 0.704124
Target:  5'- aGCGGCCacGGCCCGCgGCGAc----- -3'
miRNA:   3'- -CGUUGGaaCCGGGCGaCGCUucgaac -5'
20604 5' -55 NC_004688.1 + 109012 0.69 0.693676
Target:  5'- uGguGCCa-GGCCCGCgguucGCGccAAGCUUGg -3'
miRNA:   3'- -CguUGGaaCCGGGCGa----CGC--UUCGAAC- -5'
20604 5' -55 NC_004688.1 + 85979 0.7 0.672622
Target:  5'- uGCGAUCUUGccuagcaucGCCUGCaGCGGAGCcgUGg -3'
miRNA:   3'- -CGUUGGAAC---------CGGGCGaCGCUUCGa-AC- -5'
20604 5' -55 NC_004688.1 + 55819 0.7 0.640799
Target:  5'- uGCAACCUcUGGCCCGCaaguggucggGUGAgAGCa-- -3'
miRNA:   3'- -CGUUGGA-ACCGGGCGa---------CGCU-UCGaac -5'
20604 5' -55 NC_004688.1 + 100783 0.7 0.630164
Target:  5'- uCAGCCUUGGCgCCGUgGCGAucGCcUGa -3'
miRNA:   3'- cGUUGGAACCG-GGCGaCGCUu-CGaAC- -5'
20604 5' -55 NC_004688.1 + 99710 0.7 0.6291
Target:  5'- gGCAgGCCgugcaucUGGCCCacgacacGCUGCGAGGCg-- -3'
miRNA:   3'- -CGU-UGGa------ACCGGG-------CGACGCUUCGaac -5'
20604 5' -55 NC_004688.1 + 9811 0.71 0.623783
Target:  5'- aGguACCggaggacgucucgGGCCUGCUgGCGAAGCUg- -3'
miRNA:   3'- -CguUGGaa-----------CCGGGCGA-CGCUUCGAac -5'
20604 5' -55 NC_004688.1 + 56885 0.71 0.619531
Target:  5'- gGCAGCUccaGGCCCuCUGCGggGUucUUGa -3'
miRNA:   3'- -CGUUGGaa-CCGGGcGACGCuuCG--AAC- -5'
20604 5' -55 NC_004688.1 + 22943 0.72 0.545838
Target:  5'- cGCGACCgcaGGCCCGCuccagggaUGCGAcGCg-- -3'
miRNA:   3'- -CGUUGGaa-CCGGGCG--------ACGCUuCGaac -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.