miRNA display CGI


Results 1 - 20 of 20 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
21320 3' -54.3 NC_004778.3 + 4735 0.66 0.946749
Target:  5'- aCCGUUGGacAGUGGCCaGUcuGCUaaCGCGg -3'
miRNA:   3'- -GGCAACU--UCGCCGG-CA--UGAgaGCGUg -5'
21320 3' -54.3 NC_004778.3 + 65437 0.66 0.944057
Target:  5'- aCGUUGgcGCGGUgggcguccaucacguCGUACaaUUGCGCg -3'
miRNA:   3'- gGCAACuuCGCCG---------------GCAUGagAGCGUG- -5'
21320 3' -54.3 NC_004778.3 + 15414 0.66 0.942214
Target:  5'- aCCGUUGgcGCcGCCGauaucaaagcacUGCUCgcaGCGCc -3'
miRNA:   3'- -GGCAACuuCGcCGGC------------AUGAGag-CGUG- -5'
21320 3' -54.3 NC_004778.3 + 36318 0.66 0.937435
Target:  5'- uCCGgagGgcGUGGUCGUACcgggcgucaUgUCGCGCa -3'
miRNA:   3'- -GGCaa-CuuCGCCGGCAUG---------AgAGCGUG- -5'
21320 3' -54.3 NC_004778.3 + 33264 0.66 0.937435
Target:  5'- gCCGUUuGAGCGGCgCGUggaagaGgUCgUUGCACa -3'
miRNA:   3'- -GGCAAcUUCGCCG-GCA------UgAG-AGCGUG- -5'
21320 3' -54.3 NC_004778.3 + 38720 0.66 0.932411
Target:  5'- gCGUUGc-GCGGCa-UACUgUCGUACg -3'
miRNA:   3'- gGCAACuuCGCCGgcAUGAgAGCGUG- -5'
21320 3' -54.3 NC_004778.3 + 33389 0.67 0.921624
Target:  5'- -aGUUGAAagugcagugcuGCGGuuGUGCggaCUUGCGCc -3'
miRNA:   3'- ggCAACUU-----------CGCCggCAUGa--GAGCGUG- -5'
21320 3' -54.3 NC_004778.3 + 9441 0.67 0.91586
Target:  5'- aCGUUGGAcaCGGCCGUcgUCUCggcgGCGCa -3'
miRNA:   3'- gGCAACUUc-GCCGGCAugAGAG----CGUG- -5'
21320 3' -54.3 NC_004778.3 + 104349 0.67 0.909851
Target:  5'- aCGUUGGccGGCGuaCGUgACUCggucggCGCGCg -3'
miRNA:   3'- gGCAACU--UCGCcgGCA-UGAGa-----GCGUG- -5'
21320 3' -54.3 NC_004778.3 + 33179 0.67 0.909851
Target:  5'- aCGcUGAcgGGCcGCCGUACUUuguggacuUCGCGCu -3'
miRNA:   3'- gGCaACU--UCGcCGGCAUGAG--------AGCGUG- -5'
21320 3' -54.3 NC_004778.3 + 33605 0.67 0.903598
Target:  5'- gCCGUgc-GGaCGGCCGcGCuUUUCGCGCc -3'
miRNA:   3'- -GGCAacuUC-GCCGGCaUG-AGAGCGUG- -5'
21320 3' -54.3 NC_004778.3 + 119304 0.68 0.853294
Target:  5'- aCUGUUGuaAAGCGGCCaUAUUCUUagGCAUu -3'
miRNA:   3'- -GGCAAC--UUCGCCGGcAUGAGAG--CGUG- -5'
21320 3' -54.3 NC_004778.3 + 111682 0.69 0.828521
Target:  5'- gCCGUUGucggcuAGCaGGCCGaGCUgUUGCAg -3'
miRNA:   3'- -GGCAACu-----UCG-CCGGCaUGAgAGCGUg -5'
21320 3' -54.3 NC_004778.3 + 101286 0.7 0.792951
Target:  5'- aCCGguucgcucacGGAGCaGCCGUcCUCaUCGCACa -3'
miRNA:   3'- -GGCaa--------CUUCGcCGGCAuGAG-AGCGUG- -5'
21320 3' -54.3 NC_004778.3 + 115302 0.71 0.745195
Target:  5'- gCCGaaaaaaUUGAGGCGGCCGg---C-CGCACa -3'
miRNA:   3'- -GGC------AACUUCGCCGGCaugaGaGCGUG- -5'
21320 3' -54.3 NC_004778.3 + 113640 0.73 0.612035
Target:  5'- cUCGUUGggGCGuuUGUACUCgCGCAa -3'
miRNA:   3'- -GGCAACuuCGCcgGCAUGAGaGCGUg -5'
21320 3' -54.3 NC_004778.3 + 30687 0.74 0.580992
Target:  5'- cCCGUUGggGCGGCCu--UUaaCGCGCa -3'
miRNA:   3'- -GGCAACuuCGCCGGcauGAgaGCGUG- -5'
21320 3' -54.3 NC_004778.3 + 47567 0.74 0.550288
Target:  5'- aUGUUGggGUGGCgCGUGgUCcacgCGCGCg -3'
miRNA:   3'- gGCAACuuCGCCG-GCAUgAGa---GCGUG- -5'
21320 3' -54.3 NC_004778.3 + 69787 0.82 0.200689
Target:  5'- aCCGa-GAGGCGGCCGUGC-CUCGCGa -3'
miRNA:   3'- -GGCaaCUUCGCCGGCAUGaGAGCGUg -5'
21320 3' -54.3 NC_004778.3 + 68128 1.12 0.002233
Target:  5'- cCCGUUGAAGCGGCCGUACUCUCGCACg -3'
miRNA:   3'- -GGCAACUUCGCCGGCAUGAGAGCGUG- -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.