miRNA display CGI


Results 1 - 20 of 31 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
1573 3' -52.2 NC_001347.2 + 198966 0.66 0.997848
Target:  5'- -gUAAACCUCGGUgAgccGCGGcGAUUCGg -3'
miRNA:   3'- ggGUUUGGGGCCAgU---UGCCaUUGAGC- -5'
1573 3' -52.2 NC_001347.2 + 38787 0.66 0.997461
Target:  5'- gCCCAcGCCcagCCGGUugCAGCGGUAcaGC-CGc -3'
miRNA:   3'- -GGGUuUGG---GGCCA--GUUGCCAU--UGaGC- -5'
1573 3' -52.2 NC_001347.2 + 39416 0.66 0.997461
Target:  5'- aCCAGugCCCGcuGUUGACGGc-GCUCc -3'
miRNA:   3'- gGGUUugGGGC--CAGUUGCCauUGAGc -5'
1573 3' -52.2 NC_001347.2 + 208760 0.66 0.997202
Target:  5'- gCCCAGcacgcagguguagguGCCCgCGGUCu-CGGUGAUgagcCGa -3'
miRNA:   3'- -GGGUU---------------UGGG-GCCAGuuGCCAUUGa---GC- -5'
1573 3' -52.2 NC_001347.2 + 189840 0.66 0.997018
Target:  5'- gUCGAccGCCCuCGGUCcccgugAGCGGUAGCgCGc -3'
miRNA:   3'- gGGUU--UGGG-GCCAG------UUGCCAUUGaGC- -5'
1573 3' -52.2 NC_001347.2 + 135781 0.66 0.996566
Target:  5'- gCgCGGACCCCGGgucccguccauuccgCGGCGGgugGAC-CGg -3'
miRNA:   3'- -GgGUUUGGGGCCa--------------GUUGCCa--UUGaGC- -5'
1573 3' -52.2 NC_001347.2 + 199508 0.66 0.996512
Target:  5'- aCUCAucGCCCuCGG-CAGCGGacGGCUCa -3'
miRNA:   3'- -GGGUu-UGGG-GCCaGUUGCCa-UUGAGc -5'
1573 3' -52.2 NC_001347.2 + 163778 0.66 0.995938
Target:  5'- -aCAGugCCC-GUCAugaGGUAGCUCa -3'
miRNA:   3'- ggGUUugGGGcCAGUug-CCAUUGAGc -5'
1573 3' -52.2 NC_001347.2 + 27821 0.66 0.995938
Target:  5'- uUCAGAUCCUcguauugcgaaGGU-GGCGGUGGCUCGu -3'
miRNA:   3'- gGGUUUGGGG-----------CCAgUUGCCAUUGAGC- -5'
1573 3' -52.2 NC_001347.2 + 28995 0.67 0.993737
Target:  5'- cUCUggGCCCCGGUC-GCGGg------ -3'
miRNA:   3'- -GGGuuUGGGGCCAGuUGCCauugagc -5'
1573 3' -52.2 NC_001347.2 + 60247 0.67 0.993737
Target:  5'- aCCCGAGUCCUGGUCuuucaugauGACGGUGAg--- -3'
miRNA:   3'- -GGGUUUGGGGCCAG---------UUGCCAUUgagc -5'
1573 3' -52.2 NC_001347.2 + 136050 0.67 0.99365
Target:  5'- gCCCAcGGCCCCGGauggugcUCcagGGCGGUGGgaCGg -3'
miRNA:   3'- -GGGU-UUGGGGCC-------AG---UUGCCAUUgaGC- -5'
1573 3' -52.2 NC_001347.2 + 135382 0.67 0.99282
Target:  5'- gCCGAGggacCCCCGGUCAcgacugGCGGccgGACccUCGa -3'
miRNA:   3'- gGGUUU----GGGGCCAGU------UGCCa--UUG--AGC- -5'
1573 3' -52.2 NC_001347.2 + 222238 0.68 0.990667
Target:  5'- --aGAACCCCGGcCccuGACGGUAAUUUu -3'
miRNA:   3'- gggUUUGGGGCCaG---UUGCCAUUGAGc -5'
1573 3' -52.2 NC_001347.2 + 44429 0.68 0.989415
Target:  5'- gCUAAACCCCuGcGUUuuuauAUGGUAGCUCu -3'
miRNA:   3'- gGGUUUGGGG-C-CAGu----UGCCAUUGAGc -5'
1573 3' -52.2 NC_001347.2 + 130847 0.68 0.986521
Target:  5'- gCCCAucAUCCCGGUgcaguccgcCAACGGUAAUc-- -3'
miRNA:   3'- -GGGUu-UGGGGCCA---------GUUGCCAUUGagc -5'
1573 3' -52.2 NC_001347.2 + 216700 0.68 0.986521
Target:  5'- aCCGua-CCCGGaCAACGGUgcuuuaugGACUCa -3'
miRNA:   3'- gGGUuugGGGCCaGUUGCCA--------UUGAGc -5'
1573 3' -52.2 NC_001347.2 + 178734 0.69 0.978955
Target:  5'- uCUCAcGCCCCGGcgCAACGGguGCUg- -3'
miRNA:   3'- -GGGUuUGGGGCCa-GUUGCCauUGAgc -5'
1573 3' -52.2 NC_001347.2 + 38012 0.69 0.976649
Target:  5'- gCCGcgcGGCCUCGG-CGGCGGgcgccGACUCGc -3'
miRNA:   3'- gGGU---UUGGGGCCaGUUGCCa----UUGAGC- -5'
1573 3' -52.2 NC_001347.2 + 165707 0.69 0.976649
Target:  5'- gUCCAGcGCCUCGGUCugcagGACGGc-GCUCGu -3'
miRNA:   3'- -GGGUU-UGGGGCCAG-----UUGCCauUGAGC- -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.