miRNA display CGI


Results 1 - 20 of 45 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
16316 3' -56.4 NC_004084.1 + 26389 1.12 0.000622
Target:  5'- gUCGUAGAGGUCCUCGAACCCGAGCCCu -3'
miRNA:   3'- -AGCAUCUCCAGGAGCUUGGGCUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 49399 0.83 0.072229
Target:  5'- uUCGUAGucgucguGGUCCUCGAACCagGAGUCCu -3'
miRNA:   3'- -AGCAUCu------CCAGGAGCUUGGg-CUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 52047 0.76 0.193169
Target:  5'- cUCGUAGAGGUuuuUCUCGAGgUCGcGCCCc -3'
miRNA:   3'- -AGCAUCUCCA---GGAGCUUgGGCuCGGG- -5'
16316 3' -56.4 NC_004084.1 + 26028 0.76 0.208879
Target:  5'- gUCGUAGc---CUUCGAGCCCGAGCUCg -3'
miRNA:   3'- -AGCAUCuccaGGAGCUUGGGCUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 14273 0.74 0.290053
Target:  5'- -gGUGGAGGUCCUCGucguCgCGAGCg- -3'
miRNA:   3'- agCAUCUCCAGGAGCuu--GgGCUCGgg -5'
16316 3' -56.4 NC_004084.1 + 17823 0.73 0.297228
Target:  5'- uUUGaAGAGGUCCgaGAAgCCGAGCUCg -3'
miRNA:   3'- -AGCaUCUCCAGGagCUUgGGCUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 9874 0.73 0.304539
Target:  5'- gCGacGAGGUUCUUGAACCCu-GCCCg -3'
miRNA:   3'- aGCauCUCCAGGAGCUUGGGcuCGGG- -5'
16316 3' -56.4 NC_004084.1 + 27656 0.72 0.343157
Target:  5'- cUCGaGGAGGUCgCUCGAcUCCG-GUCCg -3'
miRNA:   3'- -AGCaUCUCCAG-GAGCUuGGGCuCGGG- -5'
16316 3' -56.4 NC_004084.1 + 5008 0.72 0.350472
Target:  5'- cUCGacGAGGUCCUCGAggaguugguagccGCCCGAcgaggGCCg -3'
miRNA:   3'- -AGCauCUCCAGGAGCU-------------UGGGCU-----CGGg -5'
16316 3' -56.4 NC_004084.1 + 815 0.72 0.351292
Target:  5'- aUCGUGGAGGUCCUCG---UCGAuGCUg -3'
miRNA:   3'- -AGCAUCUCCAGGAGCuugGGCU-CGGg -5'
16316 3' -56.4 NC_004084.1 + 35773 0.71 0.393984
Target:  5'- cCGUAGAGGU--UCGAGCCgGAGgCgCCg -3'
miRNA:   3'- aGCAUCUCCAggAGCUUGGgCUC-G-GG- -5'
16316 3' -56.4 NC_004084.1 + 1551 0.71 0.402917
Target:  5'- -aGgcGAcGGcCgUCGAGCCgGAGCCCg -3'
miRNA:   3'- agCauCU-CCaGgAGCUUGGgCUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 29906 0.71 0.43047
Target:  5'- aCGcAGAGGUgaaCgugCGAGCCCGcgccAGCCCg -3'
miRNA:   3'- aGCaUCUCCAg--Ga--GCUUGGGC----UCGGG- -5'
16316 3' -56.4 NC_004084.1 + 49711 0.71 0.43047
Target:  5'- cCGaGGAGGUUCUUGcagaacucCCCGAGUCCu -3'
miRNA:   3'- aGCaUCUCCAGGAGCuu------GGGCUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 8607 0.71 0.43047
Target:  5'- cUCGUcGAGGcugUCCUCGAGgCCGAucugGCCg -3'
miRNA:   3'- -AGCAuCUCC---AGGAGCUUgGGCU----CGGg -5'
16316 3' -56.4 NC_004084.1 + 5688 0.7 0.458127
Target:  5'- gUCGUcGAGGUCCgcuggguugaguUCGAggacgucGCUCGGGCCg -3'
miRNA:   3'- -AGCAuCUCCAGG------------AGCU-------UGGGCUCGGg -5'
16316 3' -56.4 NC_004084.1 + 43341 0.7 0.459097
Target:  5'- -aGUGGAcGGU-CUCGAACgCCGAGUCg -3'
miRNA:   3'- agCAUCU-CCAgGAGCUUG-GGCUCGGg -5'
16316 3' -56.4 NC_004084.1 + 16657 0.7 0.488707
Target:  5'- gUCGUccgGGAGGUCCUCGucGCCgGcgucGUCCc -3'
miRNA:   3'- -AGCA---UCUCCAGGAGCu-UGGgCu---CGGG- -5'
16316 3' -56.4 NC_004084.1 + 33641 0.7 0.488707
Target:  5'- uUCG-AGaAGGUCUUCGggUuuGAGUUCg -3'
miRNA:   3'- -AGCaUC-UCCAGGAGCuuGggCUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 39931 0.69 0.52951
Target:  5'- cUCGcuGAGGUuccacgucgacaCCUCGAACUCGAGCg- -3'
miRNA:   3'- -AGCauCUCCA------------GGAGCUUGGGCUCGgg -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.