miRNA display CGI


Results 1 - 20 of 66 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
5289 3' -57 NC_001798.1 + 39 0.72 0.532976
Target:  5'- gGGGGGGUguuuuuugGGGGGGGGCgcgAAgGCgggCGg -3'
miRNA:   3'- gCCCCUCA--------UCCCCCUCGa--UUgUGa--GC- -5'
5289 3' -57 NC_001798.1 + 2265 0.67 0.856053
Target:  5'- cCGGGGGGcGGGGcGGcGC-AGCGCgCGg -3'
miRNA:   3'- -GCCCCUCaUCCC-CCuCGaUUGUGaGC- -5'
5289 3' -57 NC_001798.1 + 5080 0.71 0.61272
Target:  5'- aGGGGcggcAGUGGGGGGggguGGUUGGCAgUCu -3'
miRNA:   3'- gCCCC----UCAUCCCCC----UCGAUUGUgAGc -5'
5289 3' -57 NC_001798.1 + 9701 0.69 0.751862
Target:  5'- gCGGGcGGGUGGGcucgacGGGcucgGGCUGGCGCUgGg -3'
miRNA:   3'- -GCCC-CUCAUCC------CCC----UCGAUUGUGAgC- -5'
5289 3' -57 NC_001798.1 + 10315 0.73 0.523236
Target:  5'- gGGGGGGUuggGGGGGGAacGCUGACcgGCgugCGu -3'
miRNA:   3'- gCCCCUCA---UCCCCCU--CGAUUG--UGa--GC- -5'
5289 3' -57 NC_001798.1 + 10587 0.67 0.848286
Target:  5'- gCGGGGAac-GGGGGAcuguauGCUAugGCgagCGg -3'
miRNA:   3'- -GCCCCUcauCCCCCU------CGAUugUGa--GC- -5'
5289 3' -57 NC_001798.1 + 11150 0.68 0.788965
Target:  5'- gGGGGGGgGGGGGGGGaaaUAACcACg-- -3'
miRNA:   3'- gCCCCUCaUCCCCCUCg--AUUG-UGagc -5'
5289 3' -57 NC_001798.1 + 11351 0.7 0.683313
Target:  5'- uCGGGGuuUGGGGGGGGUguuuggguggGAUcgcaGCUCGg -3'
miRNA:   3'- -GCCCCucAUCCCCCUCGa---------UUG----UGAGC- -5'
5289 3' -57 NC_001798.1 + 11708 0.69 0.742306
Target:  5'- uGGaGGGGUGGGucgggaggcuccGGGGGUguauACGCUCGa -3'
miRNA:   3'- gCC-CCUCAUCC------------CCCUCGau--UGUGAGC- -5'
5289 3' -57 NC_001798.1 + 13046 0.66 0.863621
Target:  5'- cCGGGGGGaugcgcAGGGGGAGagcgUACUUGc -3'
miRNA:   3'- -GCCCCUCa-----UCCCCCUCgauuGUGAGC- -5'
5289 3' -57 NC_001798.1 + 14318 0.66 0.891807
Target:  5'- uGGGGGGUGcGuGGGGAGgCguGCGgUCGc -3'
miRNA:   3'- gCCCCUCAU-C-CCCCUC-GauUGUgAGC- -5'
5289 3' -57 NC_001798.1 + 15188 0.82 0.162567
Target:  5'- uCGGGGGGUGGGGGG-GCUGGCGagcCGg -3'
miRNA:   3'- -GCCCCUCAUCCCCCuCGAUUGUga-GC- -5'
5289 3' -57 NC_001798.1 + 15496 0.67 0.847499
Target:  5'- gGGGGcugguguGGUGGGGGGcGUUuuCGCUgCGg -3'
miRNA:   3'- gCCCC-------UCAUCCCCCuCGAuuGUGA-GC- -5'
5289 3' -57 NC_001798.1 + 15686 0.68 0.788965
Target:  5'- gGGGGAGUAGugguugcGGGGGCggucgguuccGCGCUUGg -3'
miRNA:   3'- gCCCCUCAUCc------CCCUCGau--------UGUGAGC- -5'
5289 3' -57 NC_001798.1 + 20920 0.7 0.653142
Target:  5'- uGGGGAu--GGGGGAGC-AugAUUCGc -3'
miRNA:   3'- gCCCCUcauCCCCCUCGaUugUGAGC- -5'
5289 3' -57 NC_001798.1 + 21561 0.66 0.885084
Target:  5'- gGGGGGGgggGGGGGGAGggAAagGCa-- -3'
miRNA:   3'- gCCCCUCa--UCCCCCUCgaUUg-UGagc -5'
5289 3' -57 NC_001798.1 + 26636 0.7 0.703235
Target:  5'- uGGGGAGUGacGGGGGGGgaAACuucCGg -3'
miRNA:   3'- gCCCCUCAU--CCCCCUCgaUUGugaGC- -5'
5289 3' -57 NC_001798.1 + 27148 0.69 0.713113
Target:  5'- aCGGGGcgcGGgAGGGaGGGGCUGcuGCgaGCUCGg -3'
miRNA:   3'- -GCCCC---UCaUCCC-CCUCGAU--UG--UGAGC- -5'
5289 3' -57 NC_001798.1 + 27284 0.66 0.891807
Target:  5'- gCGGGGGGgAGGGGcuGCcgcgaGCUCGg -3'
miRNA:   3'- -GCCCCUCaUCCCCcuCGauug-UGAGC- -5'
5289 3' -57 NC_001798.1 + 27321 0.66 0.891807
Target:  5'- aGGGGAGggAGGGGGuGGCggggAAC-CgugugCGg -3'
miRNA:   3'- gCCCCUCa-UCCCCC-UCGa---UUGuGa----GC- -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.