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
8130 3' -57.5 NC_001978.2 + 21596 0.66 0.485984
Target:  5'- cGGGGcuucgucAUGCCGucacAGCGCCgcacagcggaugaCCUggGCUGa -3'
miRNA:   3'- -CCCU-------UACGGCu---UCGCGG-------------GGGuuCGAU- -5'
8130 3' -57.5 NC_001978.2 + 39505 0.66 0.477679
Target:  5'- cGGGAAaGCCcuuGccGCGCCCCCu-GCc- -3'
miRNA:   3'- -CCCUUaCGG---CuuCGCGGGGGuuCGau -5'
8130 3' -57.5 NC_001978.2 + 25653 0.66 0.467397
Target:  5'- cGGGGcacuUGCCGcucAGGUcacGCCCCUggGCg- -3'
miRNA:   3'- -CCCUu---ACGGC---UUCG---CGGGGGuuCGau -5'
8130 3' -57.5 NC_001978.2 + 36730 0.67 0.417804
Target:  5'- cGGA--GCCGGAGacgGCgCCCCAGGCc- -3'
miRNA:   3'- cCCUuaCGGCUUCg--CG-GGGGUUCGau -5'
8130 3' -57.5 NC_001978.2 + 41010 0.67 0.417804
Target:  5'- gGGGggUGUCGAcggauaggggGGUGUCCCCGGa--- -3'
miRNA:   3'- -CCCuuACGGCU----------UCGCGGGGGUUcgau -5'
8130 3' -57.5 NC_001978.2 + 9073 0.67 0.416845
Target:  5'- cGGcgccAAUGCCGAcggcgauAGCGCCaCCCGcAGCa- -3'
miRNA:   3'- cCC----UUACGGCU-------UCGCGG-GGGU-UCGau -5'
8130 3' -57.5 NC_001978.2 + 34138 0.67 0.408275
Target:  5'- cGGGugugcguccGCCGGAGCGUgCCCAcgugGGCa- -3'
miRNA:   3'- -CCCuua------CGGCUUCGCGgGGGU----UCGau -5'
8130 3' -57.5 NC_001978.2 + 6098 0.67 0.39702
Target:  5'- cGGGAGUGaCCGucagaaccuuCGCgCCCCGGGCg- -3'
miRNA:   3'- -CCCUUAC-GGCuuc-------GCG-GGGGUUCGau -5'
8130 3' -57.5 NC_001978.2 + 754 0.68 0.37155
Target:  5'- cGGGAcccgaaggcGCUGAAGCGCgCUgAGGCUGa -3'
miRNA:   3'- -CCCUua-------CGGCUUCGCGgGGgUUCGAU- -5'
8130 3' -57.5 NC_001978.2 + 29 0.69 0.312897
Target:  5'- aGGuGAGccGCCGGacccaGGCGcCCCCCAGGCc- -3'
miRNA:   3'- -CC-CUUa-CGGCU-----UCGC-GGGGGUUCGau -5'
8130 3' -57.5 NC_001978.2 + 32963 0.7 0.268432
Target:  5'- aGGGAGgauuacGCCGAAGCGCU-UCAGGCg- -3'
miRNA:   3'- -CCCUUa-----CGGCUUCGCGGgGGUUCGau -5'
8130 3' -57.5 NC_001978.2 + 23998 0.7 0.268432
Target:  5'- aGGAAUGCCGAAGCGUC---GAGCa- -3'
miRNA:   3'- cCCUUACGGCUUCGCGGgggUUCGau -5'
8130 3' -57.5 NC_001978.2 + 35559 0.7 0.268432
Target:  5'- gGGGAcGUGaaGGcgAGCGCUCCCAGGCc- -3'
miRNA:   3'- -CCCU-UACggCU--UCGCGGGGGUUCGau -5'
8130 3' -57.5 NC_001978.2 + 15191 0.71 0.235392
Target:  5'- cGGAAUcGCCacGGGCGCCCCCAaucaAGUUGu -3'
miRNA:   3'- cCCUUA-CGGc-UUCGCGGGGGU----UCGAU- -5'
8130 3' -57.5 NC_001978.2 + 32824 0.73 0.18455
Target:  5'- -----cGCUGAAGUGCCCCUGAGCg- -3'
miRNA:   3'- cccuuaCGGCUUCGCGGGGGUUCGau -5'
8130 3' -57.5 NC_001978.2 + 35564 0.74 0.147752
Target:  5'- -cGGAUGUCGAgccggagacGGCGCCCCUGAGCg- -3'
miRNA:   3'- ccCUUACGGCU---------UCGCGGGGGUUCGau -5'
8130 3' -57.5 NC_001978.2 + 36660 0.77 0.08824
Target:  5'- cGGGAA-GCCcuGAGCGCCCCUGAGCc- -3'
miRNA:   3'- -CCCUUaCGGc-UUCGCGGGGGUUCGau -5'
8130 3' -57.5 NC_001978.2 + 27595 1.08 0.000407
Target:  5'- gGGGAAUGCCGAAGCGCCCCCAAGCUAc -3'
miRNA:   3'- -CCCUUACGGCUUCGCGGGGGUUCGAU- -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.