miRNA display CGI


Results 1 - 20 of 42 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
16382 5' -62.1 NC_004084.1 + 23796 0.66 0.422882
Target:  5'- aGCGACUCCcagaCGGCAauggaCGCggUGAGCGu -3'
miRNA:   3'- cCGCUGGGGa---GCCGUg----GCGa-GCUCGU- -5'
16382 5' -62.1 NC_004084.1 + 30858 0.66 0.371032
Target:  5'- gGGCGGCCCgCUCGuCA-CGUUCGAugGCGa -3'
miRNA:   3'- -CCGCUGGG-GAGCcGUgGCGAGCU--CGU- -5'
16382 5' -62.1 NC_004084.1 + 42348 0.66 0.387827
Target:  5'- aGGCGGCggaaCUCGaGCGCCagGC-CGAGCGg -3'
miRNA:   3'- -CCGCUGgg--GAGC-CGUGG--CGaGCUCGU- -5'
16382 5' -62.1 NC_004084.1 + 51142 0.66 0.387827
Target:  5'- gGGCGAUCCCgaacgaggaGGCGaucgagacggUCGC-CGAGCAc -3'
miRNA:   3'- -CCGCUGGGGag-------CCGU----------GGCGaGCUCGU- -5'
16382 5' -62.1 NC_004084.1 + 10464 0.66 0.40424
Target:  5'- aGGCGAUCCaggaCGGCcugacggACgGcCUCGAGCGu -3'
miRNA:   3'- -CCGCUGGGga--GCCG-------UGgC-GAGCUCGU- -5'
16382 5' -62.1 NC_004084.1 + 23646 0.66 0.405116
Target:  5'- aGCGACUCCcagaCGGCAauggaCGCggUGAGCGa -3'
miRNA:   3'- cCGCUGGGGa---GCCGUg----GCGa-GCUCGU- -5'
16382 5' -62.1 NC_004084.1 + 23736 0.66 0.405116
Target:  5'- aGCGACUCCcagaCGGCAauggaCGCggUGAGCGa -3'
miRNA:   3'- cCGCUGGGGa---GCCGUg----GCGa-GCUCGU- -5'
16382 5' -62.1 NC_004084.1 + 17662 0.66 0.41394
Target:  5'- gGGCGACaCCCgagcacagggCGaCGCUGgUCGAGCu -3'
miRNA:   3'- -CCGCUG-GGGa---------GCcGUGGCgAGCUCGu -5'
16382 5' -62.1 NC_004084.1 + 33391 0.66 0.421982
Target:  5'- uGCGAUCuCCUCuggaucgGGCgGCUGCUCGAGa- -3'
miRNA:   3'- cCGCUGG-GGAG-------CCG-UGGCGAGCUCgu -5'
16382 5' -62.1 NC_004084.1 + 56391 0.66 0.371032
Target:  5'- -uCGACCUCUCGGagaCGCUCG-GCu -3'
miRNA:   3'- ccGCUGGGGAGCCgugGCGAGCuCGu -5'
16382 5' -62.1 NC_004084.1 + 50234 0.67 0.331259
Target:  5'- cGCGaACCCCacucugaGGCGUCGCUgGAGCGg -3'
miRNA:   3'- cCGC-UGGGGag-----CCGUGGCGAgCUCGU- -5'
16382 5' -62.1 NC_004084.1 + 16558 0.67 0.323691
Target:  5'- cGCGGCUCUcgggccgaUCGGUGCCGCUUuccuacucgucgGAGCGg -3'
miRNA:   3'- cCGCUGGGG--------AGCCGUGGCGAG------------CUCGU- -5'
16382 5' -62.1 NC_004084.1 + 39853 0.77 0.074699
Target:  5'- cGGCGGCCg--CGGCGCCG-UCGAGCAc -3'
miRNA:   3'- -CCGCUGGggaGCCGUGGCgAGCUCGU- -5'
16382 5' -62.1 NC_004084.1 + 13604 0.72 0.156625
Target:  5'- aGCGACCCCaUCGGUgaaguccucgacugGCCGUggcagCGAGUAg -3'
miRNA:   3'- cCGCUGGGG-AGCCG--------------UGGCGa----GCUCGU- -5'
16382 5' -62.1 NC_004084.1 + 16776 0.7 0.214525
Target:  5'- uGGCG-CUCCUC-GCACCGUUCGccgcGGCGu -3'
miRNA:   3'- -CCGCuGGGGAGcCGUGGCGAGC----UCGU- -5'
16382 5' -62.1 NC_004084.1 + 17271 0.7 0.236988
Target:  5'- cGGCGAUgCCCUCGGUggaggcggugGCgGCgguggcggCGAGCAc -3'
miRNA:   3'- -CCGCUG-GGGAGCCG----------UGgCGa-------GCUCGU- -5'
16382 5' -62.1 NC_004084.1 + 8674 0.69 0.255102
Target:  5'- gGGCGACCCaCUCGaGCACCuCgaaGAGgAg -3'
miRNA:   3'- -CCGCUGGG-GAGC-CGUGGcGag-CUCgU- -5'
16382 5' -62.1 NC_004084.1 + 37340 0.69 0.255102
Target:  5'- cGGCGAUCCCgaCGaCGCCcaGCUCGaAGCAc -3'
miRNA:   3'- -CCGCUGGGGa-GCcGUGG--CGAGC-UCGU- -5'
16382 5' -62.1 NC_004084.1 + 22156 0.69 0.274336
Target:  5'- cGCGAgCgCCUCGGCGCa-CUCGAGg- -3'
miRNA:   3'- cCGCUgG-GGAGCCGUGgcGAGCUCgu -5'
16382 5' -62.1 NC_004084.1 + 7444 0.68 0.301054
Target:  5'- uGGCGAgaCCUCGGaguCCGacggcgaCUCGAGCGg -3'
miRNA:   3'- -CCGCUggGGAGCCgu-GGC-------GAGCUCGU- -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.