miRNA display CGI


Results 1 - 17 of 17 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
12867 5' -52.4 NC_003387.1 + 41009 0.66 0.89164
Target:  5'- gGCGUCGacgGCcggGUCGAcuGCGUcGACGGc -3'
miRNA:   3'- -CGCAGCg--CGcaaCAGCU--UGCA-CUGUC- -5'
12867 5' -52.4 NC_003387.1 + 3009 0.66 0.868665
Target:  5'- cGCGUUGCGCGUg--UGGACGUuuGAa-- -3'
miRNA:   3'- -CGCAGCGCGCAacaGCUUGCA--CUguc -5'
12867 5' -52.4 NC_003387.1 + 20521 0.66 0.868665
Target:  5'- gGCGUCGCGCuc-GUCG---GUGACGa -3'
miRNA:   3'- -CGCAGCGCGcaaCAGCuugCACUGUc -5'
12867 5' -52.4 NC_003387.1 + 29318 0.66 0.860499
Target:  5'- gGCGcCGCGC-UUGUCGGGCaUGuuCAGc -3'
miRNA:   3'- -CGCaGCGCGcAACAGCUUGcACu-GUC- -5'
12867 5' -52.4 NC_003387.1 + 48238 0.66 0.860498
Target:  5'- cGUGUCGCGCccgGUCGGccGCGgccaGCAGc -3'
miRNA:   3'- -CGCAGCGCGcaaCAGCU--UGCac--UGUC- -5'
12867 5' -52.4 NC_003387.1 + 25272 0.66 0.860498
Target:  5'- aCGUCGCGCGUgcgcucgacccGUCGAucuucuAC-UGGCAGc -3'
miRNA:   3'- cGCAGCGCGCAa----------CAGCU------UGcACUGUC- -5'
12867 5' -52.4 NC_003387.1 + 10016 0.67 0.834577
Target:  5'- gGCGUUGC-CGguaucgGUCGG-CGUGACGu -3'
miRNA:   3'- -CGCAGCGcGCaa----CAGCUuGCACUGUc -5'
12867 5' -52.4 NC_003387.1 + 21291 0.67 0.825491
Target:  5'- cGCGUCGuCGuCGaggccGUCGAGCaGUGGCGc -3'
miRNA:   3'- -CGCAGC-GC-GCaa---CAGCUUG-CACUGUc -5'
12867 5' -52.4 NC_003387.1 + 43256 0.68 0.777171
Target:  5'- gGgGUCGaaauCGuCGgcGUCGAACGUGGCGc -3'
miRNA:   3'- -CgCAGC----GC-GCaaCAGCUUGCACUGUc -5'
12867 5' -52.4 NC_003387.1 + 28578 0.68 0.756696
Target:  5'- cGCGUUG-GCGUUGUCcu-CG-GGCAGg -3'
miRNA:   3'- -CGCAGCgCGCAACAGcuuGCaCUGUC- -5'
12867 5' -52.4 NC_003387.1 + 12001 0.69 0.745208
Target:  5'- cGUGUgGCGCGgccugGUCGAcacggcgcaugcgGUGUGGCAGg -3'
miRNA:   3'- -CGCAgCGCGCaa---CAGCU-------------UGCACUGUC- -5'
12867 5' -52.4 NC_003387.1 + 15016 0.7 0.648432
Target:  5'- uUGUCGCGCGg-GUCGGcguCGUccGACAGg -3'
miRNA:   3'- cGCAGCGCGCaaCAGCUu--GCA--CUGUC- -5'
12867 5' -52.4 NC_003387.1 + 30749 0.71 0.593019
Target:  5'- uCGUCGgGCagcaccgUGUCGGGCGUGACc- -3'
miRNA:   3'- cGCAGCgCGca-----ACAGCUUGCACUGuc -5'
12867 5' -52.4 NC_003387.1 + 27185 0.72 0.53843
Target:  5'- --cUCGCGCaucggGUUGcCGAACGUGACAc -3'
miRNA:   3'- cgcAGCGCG-----CAACaGCUUGCACUGUc -5'
12867 5' -52.4 NC_003387.1 + 20834 0.74 0.465244
Target:  5'- aCGUCGCGCGacGUCGGcgACGgGAUAGg -3'
miRNA:   3'- cGCAGCGCGCaaCAGCU--UGCaCUGUC- -5'
12867 5' -52.4 NC_003387.1 + 22561 0.75 0.40685
Target:  5'- gGCGaUCGCGCGggccugGUCGAGgGUGGCc- -3'
miRNA:   3'- -CGC-AGCGCGCaa----CAGCUUgCACUGuc -5'
12867 5' -52.4 NC_003387.1 + 4936 1.12 0.001545
Target:  5'- gGCGUCGCGCGUUGUCGAACGUGACAGa -3'
miRNA:   3'- -CGCAGCGCGCAACAGCUUGCACUGUC- -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.