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
2137 5' -52.2 NC_001362.1 + 404 1.14 0.000065
Target:  5'- gGGCCACAAAAAUGGCCCCCGAAGUCCc -3'
miRNA:   3'- -CCGGUGUUUUUACCGGGGGCUUCAGG- -5'
2137 5' -52.2 NC_001362.1 + 2218 0.92 0.003547
Target:  5'- aGGCCugGGGucGUGGUCCCCGggGUCCu -3'
miRNA:   3'- -CCGGugUUUu-UACCGGGGGCuuCAGG- -5'
2137 5' -52.2 NC_001362.1 + 380 0.77 0.053449
Target:  5'- gGGCCAUuuuuGUGGCCCggCCaGAGUCCa -3'
miRNA:   3'- -CCGGUGuuuuUACCGGG--GGcUUCAGG- -5'
2137 5' -52.2 NC_001362.1 + 1145 0.72 0.136529
Target:  5'- cGGCgAUAgcggaGAAGUGGCCCCUacaGAAGgagCCc -3'
miRNA:   3'- -CCGgUGU-----UUUUACCGGGGG---CUUCa--GG- -5'
2137 5' -52.2 NC_001362.1 + 6237 0.71 0.150007
Target:  5'- gGGUCACAuc----GCCCCCGGgaagccaAGUCCu -3'
miRNA:   3'- -CCGGUGUuuuuacCGGGGGCU-------UCAGG- -5'
2137 5' -52.2 NC_001362.1 + 8049 0.7 0.176667
Target:  5'- gGGCCAaGAAcaGAUGGUCCCCaGAuauGGcCCa -3'
miRNA:   3'- -CCGGUgUUU--UUACCGGGGG-CU---UCaGG- -5'
2137 5' -52.2 NC_001362.1 + 3368 0.69 0.194253
Target:  5'- uGGCCGa------GGCCCgauauCCGAGGUCCc -3'
miRNA:   3'- -CCGGUguuuuuaCCGGG-----GGCUUCAGG- -5'
2137 5' -52.2 NC_001362.1 + 1807 0.69 0.213351
Target:  5'- uGGCCACAu---UGGUuucuugCCCUG-GGUCCu -3'
miRNA:   3'- -CCGGUGUuuuuACCG------GGGGCuUCAGG- -5'
2137 5' -52.2 NC_001362.1 + 2639 0.67 0.272241
Target:  5'- gGGCCA----GAUGuGCCUCUaGGGUCCa -3'
miRNA:   3'- -CCGGUguuuUUAC-CGGGGGcUUCAGG- -5'
2137 5' -52.2 NC_001362.1 + 1148 0.67 0.272241
Target:  5'- cGUCAgGAGAggGUGGCCCU--GGGUCCc -3'
miRNA:   3'- cCGGUgUUUU--UACCGGGGgcUUCAGG- -5'
2137 5' -52.2 NC_001362.1 + 8089 0.66 0.324495
Target:  5'- gGGCCAUAucugGGGAccaucuguucuUGGCCCCgggcCGggG-CCg -3'
miRNA:   3'- -CCGGUGU----UUUU-----------ACCGGGG----GCuuCaGG- -5'
2137 5' -52.2 NC_001362.1 + 6609 0.66 0.333898
Target:  5'- uGCCAgGAcgggguuUGGUCCuauugggauCCGAGGUCCu -3'
miRNA:   3'- cCGGUgUUuuu----ACCGGG---------GGCUUCAGG- -5'
2137 5' -52.2 NC_001362.1 + 4031 0.66 0.333898
Target:  5'- gGGCCACuau--UGGUCCgaaCUGGacucGGUCCg -3'
miRNA:   3'- -CCGGUGuuuuuACCGGG---GGCU----UCAGG- -5'
2137 5' -52.2 NC_001362.1 + 5361 0.66 0.343498
Target:  5'- -cCCGCAAcacgccgGGCCCCCauGGUCUc -3'
miRNA:   3'- ccGGUGUUuuua---CCGGGGGcuUCAGG- -5'
2137 5' -52.2 NC_001362.1 + 8008 0.66 0.343498
Target:  5'- gGGCCAaGAAcaGAUGGUCaCCGcGGUUCg -3'
miRNA:   3'- -CCGGUgUUU--UUACCGGgGGCuUCAGG- -5'
2137 5' -52.2 NC_001362.1 + 4702 0.66 0.353295
Target:  5'- cGUCAUAA--GUGGCCCCUaguuuAGUCa -3'
miRNA:   3'- cCGGUGUUuuUACCGGGGGcu---UCAGg -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.