miRNA display CGI


Results 1 - 20 of 52 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
12346 5' -59.3 NC_003324.1 + 54302 0.69 0.346134
Target:  5'- uGCGUCuGCGCCGucugcacguCCGugGuGAuaucUGGCUCg -3'
miRNA:   3'- -CGUAG-CGCGGC---------GGCugCuCU----ACCGGG- -5'
12346 5' -59.3 NC_003324.1 + 54135 0.67 0.489853
Target:  5'- gGCGccUGCGCauugGCuCGACGGGAgcUGGCCg -3'
miRNA:   3'- -CGUa-GCGCGg---CG-GCUGCUCU--ACCGGg -5'
12346 5' -59.3 NC_003324.1 + 50997 0.68 0.396408
Target:  5'- aGCcUCGacgagGCUcggacgaagGCCGACGAaAUGGCCCa -3'
miRNA:   3'- -CGuAGCg----CGG---------CGGCUGCUcUACCGGG- -5'
12346 5' -59.3 NC_003324.1 + 50859 0.68 0.396408
Target:  5'- aGCAUUGCcgucGCCGUCGACGAaaaacuccGGCUCu -3'
miRNA:   3'- -CGUAGCG----CGGCGGCUGCUcua-----CCGGG- -5'
12346 5' -59.3 NC_003324.1 + 50446 0.66 0.506768
Target:  5'- uGCAgcUCGCaggGCUGCgCGAUccggagggcgaagaGuGAUGGCCCa -3'
miRNA:   3'- -CGU--AGCG---CGGCG-GCUG--------------CuCUACCGGG- -5'
12346 5' -59.3 NC_003324.1 + 50194 0.66 0.560945
Target:  5'- gGCAUgGCGCCGCUGAuaucUGGGGUaGUUUg -3'
miRNA:   3'- -CGUAgCGCGGCGGCU----GCUCUAcCGGG- -5'
12346 5' -59.3 NC_003324.1 + 49716 0.7 0.315243
Target:  5'- uUAUCcCGCUGCCcugcaGGCGGGAUGGUUCa -3'
miRNA:   3'- cGUAGcGCGGCGG-----CUGCUCUACCGGG- -5'
12346 5' -59.3 NC_003324.1 + 49124 0.67 0.488866
Target:  5'- -gAUUGCcccGCCGCCG-CGGGAgaggugagaagcaUGGCCg -3'
miRNA:   3'- cgUAGCG---CGGCGGCuGCUCU-------------ACCGGg -5'
12346 5' -59.3 NC_003324.1 + 48310 0.72 0.259826
Target:  5'- gGCAuUCGCaagaaGCUGCgCGAgGGGGUGGCUCu -3'
miRNA:   3'- -CGU-AGCG-----CGGCG-GCUgCUCUACCGGG- -5'
12346 5' -59.3 NC_003324.1 + 47733 0.7 0.300596
Target:  5'- cGCAccggCGUGCCacaGCuCGACGAuGgcGGCCCg -3'
miRNA:   3'- -CGUa---GCGCGG---CG-GCUGCU-CuaCCGGG- -5'
12346 5' -59.3 NC_003324.1 + 44587 0.71 0.266294
Target:  5'- cGCAUgcgCGUGCCGuCCGAuCGGGAaaugagGGUCCg -3'
miRNA:   3'- -CGUA---GCGCGGC-GGCU-GCUCUa-----CCGGG- -5'
12346 5' -59.3 NC_003324.1 + 43182 0.68 0.423248
Target:  5'- gGCAUuaUGC-CCGCUGGCG-GAUGGCg- -3'
miRNA:   3'- -CGUA--GCGcGGCGGCUGCuCUACCGgg -5'
12346 5' -59.3 NC_003324.1 + 42786 0.67 0.488866
Target:  5'- cGCAUCGUccgaugggaugauGCCucGCCaGCGGuugccgguccuGGUGGCCCg -3'
miRNA:   3'- -CGUAGCG-------------CGG--CGGcUGCU-----------CUACCGGG- -5'
12346 5' -59.3 NC_003324.1 + 42126 0.67 0.483946
Target:  5'- uCGUCGCcaauGCCGCCG-CGGGGaucagcaacagaccaUGGgCCg -3'
miRNA:   3'- cGUAGCG----CGGCGGCuGCUCU---------------ACCgGG- -5'
12346 5' -59.3 NC_003324.1 + 41728 0.91 0.011279
Target:  5'- aCGUCGCGCCGCCGACGAGAgcgGGCgagCCg -3'
miRNA:   3'- cGUAGCGCGGCGGCUGCUCUa--CCG---GG- -5'
12346 5' -59.3 NC_003324.1 + 40702 0.7 0.300596
Target:  5'- aGgAUCGCcCUGauCCGGCG-GAUGGCCCc -3'
miRNA:   3'- -CgUAGCGcGGC--GGCUGCuCUACCGGG- -5'
12346 5' -59.3 NC_003324.1 + 39988 0.7 0.338212
Target:  5'- cCGUCGCGCCGagcgUGGCGAGGguguUGGCg- -3'
miRNA:   3'- cGUAGCGCGGCg---GCUGCUCU----ACCGgg -5'
12346 5' -59.3 NC_003324.1 + 39831 0.7 0.325813
Target:  5'- aGCA-CGUGCCGCCGGacaccaaggccgccaUGuGGUGGCUg -3'
miRNA:   3'- -CGUaGCGCGGCGGCU---------------GCuCUACCGGg -5'
12346 5' -59.3 NC_003324.1 + 38930 0.66 0.519869
Target:  5'- uGCAuuUCGCGagcuggugggaCGCCGACGAauacgccAUGGaCCCg -3'
miRNA:   3'- -CGU--AGCGCg----------GCGGCUGCUc------UACC-GGG- -5'
12346 5' -59.3 NC_003324.1 + 36653 0.68 0.41418
Target:  5'- gGCgAagGUGCCGCCGgagauGCGAGAUGucuuGUCCg -3'
miRNA:   3'- -CG-UagCGCGGCGGC-----UGCUCUAC----CGGG- -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.