miRNA display CGI


Results 1 - 20 of 22 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
28562 3' -53.4 NC_005946.1 + 93880 0.66 0.935008
Target:  5'- cCCGUGGCCGCagCGGuagaagagccCAGGGGAcAGGCc -3'
miRNA:   3'- -GGUACUGGUG--GCCu---------GUCUCUU-UCCGc -5'
28562 3' -53.4 NC_005946.1 + 14194 0.66 0.935008
Target:  5'- gCGUGGCCACCaugagcGCGGAGGccaucAGGGCc -3'
miRNA:   3'- gGUACUGGUGGcc----UGUCUCU-----UUCCGc -5'
28562 3' -53.4 NC_005946.1 + 72120 0.66 0.929776
Target:  5'- -gGUGGCCAUCauGACGGcGGGAGGCu -3'
miRNA:   3'- ggUACUGGUGGc-CUGUCuCUUUCCGc -5'
28562 3' -53.4 NC_005946.1 + 73960 0.67 0.92429
Target:  5'- gCCGUGugCuggACCaGGACAGAG--GGGUc -3'
miRNA:   3'- -GGUACugG---UGG-CCUGUCUCuuUCCGc -5'
28562 3' -53.4 NC_005946.1 + 76676 0.67 0.92429
Target:  5'- gCAUGACCcCCGGGgaugacggcaacCAGGGGcccaGGGGCc -3'
miRNA:   3'- gGUACUGGuGGCCU------------GUCUCU----UUCCGc -5'
28562 3' -53.4 NC_005946.1 + 21259 0.67 0.923727
Target:  5'- gCAUGGCCACCGucuuugaGACGGcAGAcucucacGGCGu -3'
miRNA:   3'- gGUACUGGUGGC-------CUGUC-UCUuu-----CCGC- -5'
28562 3' -53.4 NC_005946.1 + 38511 0.67 0.918549
Target:  5'- aCUAUGucuuCCAa-GGACAGAGucguGAGGCu -3'
miRNA:   3'- -GGUACu---GGUggCCUGUCUCu---UUCCGc -5'
28562 3' -53.4 NC_005946.1 + 72800 0.67 0.918549
Target:  5'- --cUGGCCACCGucaGGCuGGGAAAGGg- -3'
miRNA:   3'- gguACUGGUGGC---CUGuCUCUUUCCgc -5'
28562 3' -53.4 NC_005946.1 + 88008 0.67 0.906305
Target:  5'- aCCGUGACCAU--GAC-GAGAAAGGg- -3'
miRNA:   3'- -GGUACUGGUGgcCUGuCUCUUUCCgc -5'
28562 3' -53.4 NC_005946.1 + 82557 0.67 0.893061
Target:  5'- aCCAcgacUGcACCACCGccucgucCGGGGAGAGGCu -3'
miRNA:   3'- -GGU----AC-UGGUGGCcu-----GUCUCUUUCCGc -5'
28562 3' -53.4 NC_005946.1 + 14019 0.67 0.893061
Target:  5'- cCCAUGACCAaCGaGCcuGGAGAGcuGGCGg -3'
miRNA:   3'- -GGUACUGGUgGCcUG--UCUCUUu-CCGC- -5'
28562 3' -53.4 NC_005946.1 + 14655 0.68 0.886071
Target:  5'- cCCcUGGCUcaGCCGGGgGGAGGccgacaAGGGCa -3'
miRNA:   3'- -GGuACUGG--UGGCCUgUCUCU------UUCCGc -5'
28562 3' -53.4 NC_005946.1 + 98616 0.68 0.886071
Target:  5'- gCCGUGGuggccUCAgCGGACAGGGugacguuAAGGCu -3'
miRNA:   3'- -GGUACU-----GGUgGCCUGUCUCu------UUCCGc -5'
28562 3' -53.4 NC_005946.1 + 12756 0.68 0.886071
Target:  5'- --cUGugCucaGGGCGGAGGGAGGCa -3'
miRNA:   3'- gguACugGuggCCUGUCUCUUUCCGc -5'
28562 3' -53.4 NC_005946.1 + 3293 0.68 0.878842
Target:  5'- uCCAggcucaGGCCAUCGGcAguGAGGcuGGCGg -3'
miRNA:   3'- -GGUa-----CUGGUGGCC-UguCUCUuuCCGC- -5'
28562 3' -53.4 NC_005946.1 + 12877 0.68 0.863686
Target:  5'- gCCGUGGCUcaggugagGCUGGACGGc-GGAGGUGa -3'
miRNA:   3'- -GGUACUGG--------UGGCCUGUCucUUUCCGC- -5'
28562 3' -53.4 NC_005946.1 + 83735 0.69 0.813113
Target:  5'- aCGUGGCCGUgGGcGCGGGuGggGGGCGa -3'
miRNA:   3'- gGUACUGGUGgCC-UGUCU-CuuUCCGC- -5'
28562 3' -53.4 NC_005946.1 + 16431 0.7 0.794763
Target:  5'- aUCAaGGCCGCCGGAgCAGAGGAGauGuGCu -3'
miRNA:   3'- -GGUaCUGGUGGCCU-GUCUCUUU--C-CGc -5'
28562 3' -53.4 NC_005946.1 + 40662 0.7 0.785348
Target:  5'- aUCAUGACUGCCacaacugcaGACAGGGccacGAGGGCGg -3'
miRNA:   3'- -GGUACUGGUGGc--------CUGUCUC----UUUCCGC- -5'
28562 3' -53.4 NC_005946.1 + 93939 0.71 0.736272
Target:  5'- cCCGcGACCGCCaGccuCAGAGAGuGGCGu -3'
miRNA:   3'- -GGUaCUGGUGGcCu--GUCUCUUuCCGC- -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.