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
1597 3' -59.9 NC_001347.2 + 1926 0.66 0.887673
Target:  5'- --gCGGUgcuGCCCGCGCGguggcugggcugcgCGGcgggGCCGGc -3'
miRNA:   3'- ggaGCCA---CGGGCGUGUa-------------GCCa---CGGCC- -5'
1597 3' -59.9 NC_001347.2 + 81492 0.66 0.885111
Target:  5'- gCUCGGcggGUgCGCACcgcCGGUGCUGc -3'
miRNA:   3'- gGAGCCa--CGgGCGUGua-GCCACGGCc -5'
1597 3' -59.9 NC_001347.2 + 162523 0.66 0.878568
Target:  5'- gCUUGG-GUuuGCAUAgccgcuucUCGGUGCgGGu -3'
miRNA:   3'- gGAGCCaCGggCGUGU--------AGCCACGgCC- -5'
1597 3' -59.9 NC_001347.2 + 107788 0.66 0.878568
Target:  5'- cUCUCGGUGCUgggCGCuucCAUCGc-GCUGGa -3'
miRNA:   3'- -GGAGCCACGG---GCGu--GUAGCcaCGGCC- -5'
1597 3' -59.9 NC_001347.2 + 90521 0.66 0.871835
Target:  5'- gCCUCGGaGaCCGagaaAUCGGcgGCCGGa -3'
miRNA:   3'- -GGAGCCaCgGGCgug-UAGCCa-CGGCC- -5'
1597 3' -59.9 NC_001347.2 + 38958 0.66 0.870466
Target:  5'- cCCUCGGgaugGCCgGCcuugucgcccacCGUCGG-GUCGGc -3'
miRNA:   3'- -GGAGCCa---CGGgCGu-----------GUAGCCaCGGCC- -5'
1597 3' -59.9 NC_001347.2 + 152236 0.66 0.864915
Target:  5'- gCCgCGGcGCuuGCAC-UUGGaGCCGGc -3'
miRNA:   3'- -GGaGCCaCGggCGUGuAGCCaCGGCC- -5'
1597 3' -59.9 NC_001347.2 + 30593 0.66 0.857813
Target:  5'- gCCgggCGGcuuCCUGCggccgGCcgCGGUGCCGGc -3'
miRNA:   3'- -GGa--GCCac-GGGCG-----UGuaGCCACGGCC- -5'
1597 3' -59.9 NC_001347.2 + 208777 0.66 0.857813
Target:  5'- ---aGGUGCCCGCGgucUCGGUgaugaGCCGa -3'
miRNA:   3'- ggagCCACGGGCGUgu-AGCCA-----CGGCc -5'
1597 3' -59.9 NC_001347.2 + 166007 0.66 0.855648
Target:  5'- aCCUcCGGUacggacgucgcGCCUGC-CGuugauucuucgugaUCGGUGUCGGg -3'
miRNA:   3'- -GGA-GCCA-----------CGGGCGuGU--------------AGCCACGGCC- -5'
1597 3' -59.9 NC_001347.2 + 13522 0.66 0.850534
Target:  5'- cCCgcCGGgcgGCCCGgGCcgCcGUGCUGGa -3'
miRNA:   3'- -GGa-GCCa--CGGGCgUGuaGcCACGGCC- -5'
1597 3' -59.9 NC_001347.2 + 95489 0.66 0.850534
Target:  5'- --cCGGUGUCgGCGgAUUGGUuCCGGu -3'
miRNA:   3'- ggaGCCACGGgCGUgUAGCCAcGGCC- -5'
1597 3' -59.9 NC_001347.2 + 67376 0.66 0.848316
Target:  5'- gCCUCGGacuccugcaccgucUcGCCCGCGCuGUgGGcgcUGCUGGg -3'
miRNA:   3'- -GGAGCC--------------A-CGGGCGUG-UAgCC---ACGGCC- -5'
1597 3' -59.9 NC_001347.2 + 136085 0.67 0.819754
Target:  5'- --aCGG-GCCCGCggACGgacCGGcGCCGGg -3'
miRNA:   3'- ggaGCCaCGGGCG--UGUa--GCCaCGGCC- -5'
1597 3' -59.9 NC_001347.2 + 110164 0.67 0.819754
Target:  5'- gCUUUGGUcGCCUGCACugccaGGUGCuuCGGc -3'
miRNA:   3'- -GGAGCCA-CGGGCGUGuag--CCACG--GCC- -5'
1597 3' -59.9 NC_001347.2 + 150870 0.67 0.803451
Target:  5'- gCUUCGGUGCgCGUc--UCGGUGCucuCGGa -3'
miRNA:   3'- -GGAGCCACGgGCGuguAGCCACG---GCC- -5'
1597 3' -59.9 NC_001347.2 + 115054 0.68 0.778003
Target:  5'- --aCGGUGUuuUCGC-CGUCGGUGCagaGGa -3'
miRNA:   3'- ggaGCCACG--GGCGuGUAGCCACGg--CC- -5'
1597 3' -59.9 NC_001347.2 + 1732 0.68 0.769284
Target:  5'- gCCggCGGUggGCCgGCACGaCGGUggcgcugcagacGCCGGg -3'
miRNA:   3'- -GGa-GCCA--CGGgCGUGUaGCCA------------CGGCC- -5'
1597 3' -59.9 NC_001347.2 + 183481 0.69 0.740707
Target:  5'- gCCUCGGgagacgcgcgcaGCCCcaGCGCGUCGcGUacccggugcaGCCGGa -3'
miRNA:   3'- -GGAGCCa-----------CGGG--CGUGUAGC-CA----------CGGCC- -5'
1597 3' -59.9 NC_001347.2 + 109531 0.69 0.697275
Target:  5'- uCCUCGGcgacgGCgUGCACGUCGGgcguuaugacacgcgGCCGc -3'
miRNA:   3'- -GGAGCCa----CGgGCGUGUAGCCa--------------CGGCc -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.