miRNA display CGI


Results 1 - 16 of 16 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
19589 3' -57.4 NC_004686.1 + 48203 0.66 0.609026
Target:  5'- aGGCACaCCCUGCAGcaacacgauucguccGGGGAaGCCGc- -3'
miRNA:   3'- -CCGUG-GGGGCGUCa--------------CCUUUaCGGCau -5'
19589 3' -57.4 NC_004686.1 + 11984 0.66 0.601395
Target:  5'- cGGCACCgaCCGgcccaggaggcagacCAGcGGAcAUGCCGUGc -3'
miRNA:   3'- -CCGUGGg-GGC---------------GUCaCCUuUACGGCAU- -5'
19589 3' -57.4 NC_004686.1 + 9070 0.66 0.59704
Target:  5'- aGGCGCuguCCCCGUucGGUGGGA--GCCa-- -3'
miRNA:   3'- -CCGUG---GGGGCG--UCACCUUuaCGGcau -5'
19589 3' -57.4 NC_004686.1 + 23164 0.66 0.597039
Target:  5'- cGGCAUCCCaauCAGUcacauugacgGGAAGUGUCGg- -3'
miRNA:   3'- -CCGUGGGGgc-GUCA----------CCUUUACGGCau -5'
19589 3' -57.4 NC_004686.1 + 40408 0.66 0.579671
Target:  5'- aGGCAUgCCggugaGCAGUGGucacugacgccgaugAAGUGCCGa- -3'
miRNA:   3'- -CCGUGgGGg----CGUCACC---------------UUUACGGCau -5'
19589 3' -57.4 NC_004686.1 + 51176 0.66 0.553834
Target:  5'- aGGUACagCCUCGCGGcGGAcgagAAUGCCGc- -3'
miRNA:   3'- -CCGUG--GGGGCGUCaCCU----UUACGGCau -5'
19589 3' -57.4 NC_004686.1 + 32066 0.67 0.532567
Target:  5'- cGGUGCacggaUCCGguGUGGGAuuUGCCGg- -3'
miRNA:   3'- -CCGUGg----GGGCguCACCUUu-ACGGCau -5'
19589 3' -57.4 NC_004686.1 + 24604 0.67 0.501246
Target:  5'- aGGCACCugaucgacacguCCCGCgucacGGUcaGGAGGcUGCCGUGa -3'
miRNA:   3'- -CCGUGG------------GGGCG-----UCA--CCUUU-ACGGCAU- -5'
19589 3' -57.4 NC_004686.1 + 33690 0.67 0.490985
Target:  5'- cGCGCCCCUGgGGUccgGGAAgcGUGCCc-- -3'
miRNA:   3'- cCGUGGGGGCgUCA---CCUU--UACGGcau -5'
19589 3' -57.4 NC_004686.1 + 2158 0.68 0.470762
Target:  5'- -cCGCCCCCGaCA-UGGAGAUaGCCGg- -3'
miRNA:   3'- ccGUGGGGGC-GUcACCUUUA-CGGCau -5'
19589 3' -57.4 NC_004686.1 + 22691 0.68 0.431646
Target:  5'- uGGCGaucugCCCgGCGGUGGggGUGaCCa-- -3'
miRNA:   3'- -CCGUg----GGGgCGUCACCuuUAC-GGcau -5'
19589 3' -57.4 NC_004686.1 + 25190 0.69 0.422167
Target:  5'- aGGCugCCgcaaCCGCAGUGGAAAccCgCGUGa -3'
miRNA:   3'- -CCGugGG----GGCGUCACCUUUacG-GCAU- -5'
19589 3' -57.4 NC_004686.1 + 39208 0.7 0.35948
Target:  5'- cGGCcguguccugACCCCCGUugaGGUGGAGaagGUGgCGUGg -3'
miRNA:   3'- -CCG---------UGGGGGCG---UCACCUU---UACgGCAU- -5'
19589 3' -57.4 NC_004686.1 + 56068 0.72 0.281769
Target:  5'- cGGCACCCgCGacCGGUGGAcccgcGAcGCCGUGc -3'
miRNA:   3'- -CCGUGGGgGC--GUCACCU-----UUaCGGCAU- -5'
19589 3' -57.4 NC_004686.1 + 10756 0.74 0.212341
Target:  5'- cGGCACCCCCGCGGcgcaagccgcccUGGAcgcguucGUGUCGa- -3'
miRNA:   3'- -CCGUGGGGGCGUC------------ACCUu------UACGGCau -5'
19589 3' -57.4 NC_004686.1 + 20039 1.09 0.000608
Target:  5'- cGGCACCCCCGCAGUGGAAAUGCCGUAc -3'
miRNA:   3'- -CCGUGGGGGCGUCACCUUUACGGCAU- -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.