miRNA display CGI


Results 1 - 20 of 22 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
27467 5' -56.3 NC_005869.1 + 23660 0.66 0.51353
Target:  5'- cCAUG-GCccgCUGCCACuucuGCUCCUGAGCAu -3'
miRNA:   3'- -GUGCaCGa--GGUGGUG----UGGGGAUUCGU- -5'
27467 5' -56.3 NC_005869.1 + 25812 0.66 0.51353
Target:  5'- gAgGUGCaagCCAUCaACACCUUUGAGCu -3'
miRNA:   3'- gUgCACGa--GGUGG-UGUGGGGAUUCGu -5'
27467 5' -56.3 NC_005869.1 + 11028 0.66 0.512442
Target:  5'- uGCGgcugggGCUgCCGCCAggUGCCCCUGcugggccGGCAg -3'
miRNA:   3'- gUGCa-----CGA-GGUGGU--GUGGGGAU-------UCGU- -5'
27467 5' -56.3 NC_005869.1 + 21814 0.66 0.49195
Target:  5'- gGCGUGCaCCAgCCGCACCg--AGGCGu -3'
miRNA:   3'- gUGCACGaGGU-GGUGUGGggaUUCGU- -5'
27467 5' -56.3 NC_005869.1 + 16946 0.66 0.481317
Target:  5'- -cCGUGCUCCggGCCAcCACCgCCgugccGAGCc -3'
miRNA:   3'- guGCACGAGG--UGGU-GUGG-GGa----UUCGu -5'
27467 5' -56.3 NC_005869.1 + 20647 0.66 0.481317
Target:  5'- cUACGgccUGCgCUACCGCucccaGCUCCUGGGCAa -3'
miRNA:   3'- -GUGC---ACGaGGUGGUG-----UGGGGAUUCGU- -5'
27467 5' -56.3 NC_005869.1 + 1290 0.66 0.460395
Target:  5'- gACGUGauugauaacgCUACCGaguCACCUCUGAGCAu -3'
miRNA:   3'- gUGCACga--------GGUGGU---GUGGGGAUUCGU- -5'
27467 5' -56.3 NC_005869.1 + 9596 0.67 0.439965
Target:  5'- gGCGgcugaGCUCCGCCACcgaggGCgCCUcGGCGg -3'
miRNA:   3'- gUGCa----CGAGGUGGUG-----UGgGGAuUCGU- -5'
27467 5' -56.3 NC_005869.1 + 8318 0.67 0.439965
Target:  5'- gCGCGggccaGCUCCACCGCGgUCUgggGGGUAg -3'
miRNA:   3'- -GUGCa----CGAGGUGGUGUgGGGa--UUCGU- -5'
27467 5' -56.3 NC_005869.1 + 24269 0.67 0.433937
Target:  5'- aCACgGUGCUCCccuCCGaGCCCCgccgggacgaggagGAGCAg -3'
miRNA:   3'- -GUG-CACGAGGu--GGUgUGGGGa-------------UUCGU- -5'
27467 5' -56.3 NC_005869.1 + 28342 0.67 0.429946
Target:  5'- cUACGUGCUggCCACCGC-CCUCaucguGCAg -3'
miRNA:   3'- -GUGCACGA--GGUGGUGuGGGGauu--CGU- -5'
27467 5' -56.3 NC_005869.1 + 32194 0.67 0.428951
Target:  5'- gCACcUGCUCCGCCaucauucGCGCCUCc-AGCAg -3'
miRNA:   3'- -GUGcACGAGGUGG-------UGUGGGGauUCGU- -5'
27467 5' -56.3 NC_005869.1 + 15972 0.69 0.337642
Target:  5'- gCugGUGCUggGCaCGCGCCCC-AGGCGc -3'
miRNA:   3'- -GugCACGAggUG-GUGUGGGGaUUCGU- -5'
27467 5' -56.3 NC_005869.1 + 2913 0.69 0.321
Target:  5'- aAUGUGCUCCuccgcagcACCAUguuugugggcgGCCgCCUGGGCAg -3'
miRNA:   3'- gUGCACGAGG--------UGGUG-----------UGG-GGAUUCGU- -5'
27467 5' -56.3 NC_005869.1 + 3911 0.69 0.312912
Target:  5'- uGCcUGCUaCUACCACuACCCCgAAGCGg -3'
miRNA:   3'- gUGcACGA-GGUGGUG-UGGGGaUUCGU- -5'
27467 5' -56.3 NC_005869.1 + 2822 0.69 0.30263
Target:  5'- cCugGUGUgCUGCCAgagcgggauggugaUGCCCCUGAGCAc -3'
miRNA:   3'- -GugCACGaGGUGGU--------------GUGGGGAUUCGU- -5'
27467 5' -56.3 NC_005869.1 + 25639 0.71 0.240489
Target:  5'- --aGUGC-CCGCCGCcCCUCUGGGCu -3'
miRNA:   3'- gugCACGaGGUGGUGuGGGGAUUCGu -5'
27467 5' -56.3 NC_005869.1 + 17501 0.71 0.234072
Target:  5'- cCGCGUGCgCC-UCGCGCCCCcaGAGCGc -3'
miRNA:   3'- -GUGCACGaGGuGGUGUGGGGa-UUCGU- -5'
27467 5' -56.3 NC_005869.1 + 17506 0.72 0.204118
Target:  5'- gGCG-GCUCCACCAcCACCUCcu-GCAg -3'
miRNA:   3'- gUGCaCGAGGUGGU-GUGGGGauuCGU- -5'
27467 5' -56.3 NC_005869.1 + 17361 0.79 0.061885
Target:  5'- aGCGUGCUagcCCACCGCACaCCC-AGGCAg -3'
miRNA:   3'- gUGCACGA---GGUGGUGUG-GGGaUUCGU- -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.