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
11417 3' -54.8 NC_003085.1 + 46455 0.66 0.703367
Target:  5'- gGCGUCguccGUGCGCCCaG-CGGGgaGCg -3'
miRNA:   3'- gUGCGGa---CAUGCGGGaCaGUCCauUG- -5'
11417 3' -54.8 NC_003085.1 + 10961 0.66 0.681264
Target:  5'- uGCGCUcGU--GCCCUgGUCAGGgcgGACg -3'
miRNA:   3'- gUGCGGaCAugCGGGA-CAGUCCa--UUG- -5'
11417 3' -54.8 NC_003085.1 + 45909 0.66 0.670134
Target:  5'- -uCGCCgUGUGCGCCCaGagAGGcAGCc -3'
miRNA:   3'- guGCGG-ACAUGCGGGaCagUCCaUUG- -5'
11417 3' -54.8 NC_003085.1 + 34738 0.66 0.658967
Target:  5'- -uCGCCaGcacgACGuCCCUGUCGGGcUGGCc -3'
miRNA:   3'- guGCGGaCa---UGC-GGGACAGUCC-AUUG- -5'
11417 3' -54.8 NC_003085.1 + 22758 0.67 0.647774
Target:  5'- cCGCGCCgacgACGCCC-GcCGcGGUGGCg -3'
miRNA:   3'- -GUGCGGaca-UGCGGGaCaGU-CCAUUG- -5'
11417 3' -54.8 NC_003085.1 + 3867 0.67 0.625354
Target:  5'- gCGCGUCgacgGcGCGCCCgccgucUGUCGcGGUGGCa -3'
miRNA:   3'- -GUGCGGa---CaUGCGGG------ACAGU-CCAUUG- -5'
11417 3' -54.8 NC_003085.1 + 20087 0.67 0.625354
Target:  5'- aCGCGCgCUGUgACGUgCCg--CAGGUGGCg -3'
miRNA:   3'- -GUGCG-GACA-UGCG-GGacaGUCCAUUG- -5'
11417 3' -54.8 NC_003085.1 + 25914 0.67 0.614148
Target:  5'- cCGCGCCgagcaGCGCCCUGg-AGG-AGCa -3'
miRNA:   3'- -GUGCGGaca--UGCGGGACagUCCaUUG- -5'
11417 3' -54.8 NC_003085.1 + 9723 0.68 0.580667
Target:  5'- aACGCCUGUGUGUCCUcggcgucauggaGUcCAGGgcGCg -3'
miRNA:   3'- gUGCGGACAUGCGGGA------------CA-GUCCauUG- -5'
11417 3' -54.8 NC_003085.1 + 28356 0.68 0.569583
Target:  5'- cCACaCCUc--CGCCCUGUCccagGGGUGGCa -3'
miRNA:   3'- -GUGcGGAcauGCGGGACAG----UCCAUUG- -5'
11417 3' -54.8 NC_003085.1 + 37964 0.68 0.558552
Target:  5'- aACGCCaucugGUGCGCCaUGUCAGcGUcugcGGCg -3'
miRNA:   3'- gUGCGGa----CAUGCGGgACAGUC-CA----UUG- -5'
11417 3' -54.8 NC_003085.1 + 5873 0.68 0.541032
Target:  5'- aGCGCCUGcgaccucugccgugGCGCCggGUC-GGUGACg -3'
miRNA:   3'- gUGCGGACa-------------UGCGGgaCAGuCCAUUG- -5'
11417 3' -54.8 NC_003085.1 + 22596 0.69 0.504463
Target:  5'- gGCGCCggcagGUGCGCcuCCUGaaucgaGGGUGGCg -3'
miRNA:   3'- gUGCGGa----CAUGCG--GGACag----UCCAUUG- -5'
11417 3' -54.8 NC_003085.1 + 49443 0.69 0.483455
Target:  5'- aGCGCCcaUGUACGCCCUccuuaGUguGGUu-- -3'
miRNA:   3'- gUGCGG--ACAUGCGGGA-----CAguCCAuug -5'
11417 3' -54.8 NC_003085.1 + 21558 0.72 0.341769
Target:  5'- gGCGCgaGcucguggACGCCCUGcacCAGGUGACg -3'
miRNA:   3'- gUGCGgaCa------UGCGGGACa--GUCCAUUG- -5'
11417 3' -54.8 NC_003085.1 + 44607 1.1 0.000738
Target:  5'- cCACGCCUGUACGCCCUGUCAGGUAACa -3'
miRNA:   3'- -GUGCGGACAUGCGGGACAGUCCAUUG- -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.