miRNA display CGI


Results 1 - 18 of 18 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
12096 3' -53.5 NC_003309.1 + 25666 0.66 0.785472
Target:  5'- cGCGCAGGUUGCGCGaaacgcacUGCUgcuugaggcuuuGGCccgAUGCAc -3'
miRNA:   3'- -UGCGUUCAACGUGU--------AUGG------------CCG---UGCGU- -5'
12096 3' -53.5 NC_003309.1 + 45295 0.66 0.775239
Target:  5'- cGCGCGAcaUGC-CuUGCCGGUACaGCGg -3'
miRNA:   3'- -UGCGUUcaACGuGuAUGGCCGUG-CGU- -5'
12096 3' -53.5 NC_003309.1 + 48956 0.66 0.775239
Target:  5'- -aGCGGGUUaagacgGCACAcacCCGGCacACGCAg -3'
miRNA:   3'- ugCGUUCAA------CGUGUau-GGCCG--UGCGU- -5'
12096 3' -53.5 NC_003309.1 + 22019 0.66 0.764851
Target:  5'- -aGCcGGgcgUGCACGUcaggACCGGCucCGCGu -3'
miRNA:   3'- ugCGuUCa--ACGUGUA----UGGCCGu-GCGU- -5'
12096 3' -53.5 NC_003309.1 + 19303 0.66 0.754318
Target:  5'- cACGCcga--GCGCGUuuUCGGCGCGCAc -3'
miRNA:   3'- -UGCGuucaaCGUGUAu-GGCCGUGCGU- -5'
12096 3' -53.5 NC_003309.1 + 27956 0.66 0.751132
Target:  5'- cCGC-AGUUGCAUcgcagaugcgucgcgGCgGGCACGCGc -3'
miRNA:   3'- uGCGuUCAACGUGua-------------UGgCCGUGCGU- -5'
12096 3' -53.5 NC_003309.1 + 23277 0.66 0.743653
Target:  5'- uUGCAGGUaGUagaaGCGUGCCG-CACGCu -3'
miRNA:   3'- uGCGUUCAaCG----UGUAUGGCcGUGCGu -5'
12096 3' -53.5 NC_003309.1 + 18209 0.67 0.73287
Target:  5'- cACGC-AGUUGCACGUaaaGCgCGGCuccuUGCc -3'
miRNA:   3'- -UGCGuUCAACGUGUA---UG-GCCGu---GCGu -5'
12096 3' -53.5 NC_003309.1 + 22456 0.67 0.73287
Target:  5'- uGCGCGGcgaucGCACGcUGCCGGCgucgaGCGCGg -3'
miRNA:   3'- -UGCGUUcaa--CGUGU-AUGGCCG-----UGCGU- -5'
12096 3' -53.5 NC_003309.1 + 22420 0.67 0.69993
Target:  5'- cGCGCGAGaucUUGCccaacgcuucgGCAUGCCGcuGCGCGUc -3'
miRNA:   3'- -UGCGUUC---AACG-----------UGUAUGGC--CGUGCGu -5'
12096 3' -53.5 NC_003309.1 + 37311 0.68 0.682085
Target:  5'- cGCGCGAucgUGCGCGacgcccugaaucucGCCGGCGCGUc -3'
miRNA:   3'- -UGCGUUca-ACGUGUa-------------UGGCCGUGCGu -5'
12096 3' -53.5 NC_003309.1 + 5159 0.68 0.666363
Target:  5'- -gGCGAGcUGCGCGUcGCCG-CGCGCc -3'
miRNA:   3'- ugCGUUCaACGUGUA-UGGCcGUGCGu -5'
12096 3' -53.5 NC_003309.1 + 45376 0.68 0.666363
Target:  5'- uGCGCucgacgUGCuCGggaaACCGGCGCGCGa -3'
miRNA:   3'- -UGCGuuca--ACGuGUa---UGGCCGUGCGU- -5'
12096 3' -53.5 NC_003309.1 + 12150 0.68 0.643796
Target:  5'- gACGCGcAGUUGCGCGauccgcUGCCGgauguugucgaGCAUGCGc -3'
miRNA:   3'- -UGCGU-UCAACGUGU------AUGGC-----------CGUGCGU- -5'
12096 3' -53.5 NC_003309.1 + 39274 0.69 0.598612
Target:  5'- cGCGCAugcGUUGCGuc-GCCaGCGCGCAg -3'
miRNA:   3'- -UGCGUu--CAACGUguaUGGcCGUGCGU- -5'
12096 3' -53.5 NC_003309.1 + 5133 0.7 0.510234
Target:  5'- cCGCGAGc-GCACGUACCauGCGCGCc -3'
miRNA:   3'- uGCGUUCaaCGUGUAUGGc-CGUGCGu -5'
12096 3' -53.5 NC_003309.1 + 27180 0.74 0.304414
Target:  5'- cGCGCGuGUUGUAg--ACCGGCGCGCc -3'
miRNA:   3'- -UGCGUuCAACGUguaUGGCCGUGCGu -5'
12096 3' -53.5 NC_003309.1 + 690 1.09 0.001308
Target:  5'- cACGCAAGUUGCACAUACCGGCACGCAg -3'
miRNA:   3'- -UGCGUUCAACGUGUAUGGCCGUGCGU- -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.