miRNA display CGI


Results 1 - 20 of 29 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
20421 3' -54 NC_004688.1 + 108739 0.66 0.916701
Target:  5'- aCGuUGCGUACGguCGCgguugCGAgcugggaaccgaaCUCGAGCg -3'
miRNA:   3'- -GC-GCGUAUGCguGCGa----GCU-------------GAGCUUG- -5'
20421 3' -54 NC_004688.1 + 106414 0.68 0.84602
Target:  5'- gCGCGCGUAUcgcuaGCGCGC-CGGCUagUGAGg -3'
miRNA:   3'- -GCGCGUAUG-----CGUGCGaGCUGA--GCUUg -5'
20421 3' -54 NC_004688.1 + 105952 0.66 0.911255
Target:  5'- cCGCGCGacuUGCGCGaugaGCUgGACgcacgCGAGa -3'
miRNA:   3'- -GCGCGU---AUGCGUg---CGAgCUGa----GCUUg -5'
20421 3' -54 NC_004688.1 + 103472 0.75 0.44788
Target:  5'- cCGCGaAUACGCGCGacagaUCGAgUCGGGCg -3'
miRNA:   3'- -GCGCgUAUGCGUGCg----AGCUgAGCUUG- -5'
20421 3' -54 NC_004688.1 + 101891 0.77 0.393516
Target:  5'- gCGCGCAUAC-CACGCcCGACUgGGAa -3'
miRNA:   3'- -GCGCGUAUGcGUGCGaGCUGAgCUUg -5'
20421 3' -54 NC_004688.1 + 100309 0.67 0.904964
Target:  5'- aCGaCGUAcucCGCACGUgccgCGACUgCGGACa -3'
miRNA:   3'- -GC-GCGUau-GCGUGCGa---GCUGA-GCUUG- -5'
20421 3' -54 NC_004688.1 + 99608 0.7 0.764315
Target:  5'- gGCugGCGUGCGcCACGC-CGAgaaaCUCGGACu -3'
miRNA:   3'- gCG--CGUAUGC-GUGCGaGCU----GAGCUUG- -5'
20421 3' -54 NC_004688.1 + 95190 0.66 0.919639
Target:  5'- gGCGCAUcccccagcauugcgaGCGCGCGUgagGAaUCGAACc -3'
miRNA:   3'- gCGCGUA---------------UGCGUGCGag-CUgAGCUUG- -5'
20421 3' -54 NC_004688.1 + 83542 0.67 0.891639
Target:  5'- uCGCcCAUGCGaucgaGCUUGGCUCGcAGCg -3'
miRNA:   3'- -GCGcGUAUGCgug--CGAGCUGAGC-UUG- -5'
20421 3' -54 NC_004688.1 + 80226 0.69 0.802292
Target:  5'- uCG-GCGUACGCcCGCUuaucCGACUCGGc- -3'
miRNA:   3'- -GCgCGUAUGCGuGCGA----GCUGAGCUug -5'
20421 3' -54 NC_004688.1 + 72883 0.66 0.93389
Target:  5'- gGCGCAccgGCuCAUGCUC--CUCGAACc -3'
miRNA:   3'- gCGCGUa--UGcGUGCGAGcuGAGCUUG- -5'
20421 3' -54 NC_004688.1 + 70217 0.75 0.496207
Target:  5'- aGCGCuccgccggGCGUGCGCUUGAUUCGAu- -3'
miRNA:   3'- gCGCGua------UGCGUGCGAGCUGAGCUug -5'
20421 3' -54 NC_004688.1 + 67717 0.68 0.837655
Target:  5'- cCGCGuCGUACuCGCGCUCGGCcCGc-- -3'
miRNA:   3'- -GCGC-GUAUGcGUGCGAGCUGaGCuug -5'
20421 3' -54 NC_004688.1 + 62732 0.7 0.724343
Target:  5'- cCGCGacugGUGCGCACGCaagGAUUUGAACc -3'
miRNA:   3'- -GCGCg---UAUGCGUGCGag-CUGAGCUUG- -5'
20421 3' -54 NC_004688.1 + 56697 0.66 0.92807
Target:  5'- uCGCGCAUaccgauucugaagACGgAUGC-CGAgcuuCUCGAACu -3'
miRNA:   3'- -GCGCGUA-------------UGCgUGCGaGCU----GAGCUUG- -5'
20421 3' -54 NC_004688.1 + 51417 0.68 0.861339
Target:  5'- aGCGCGccaaggcUGCGCugG-UCGACUaCGAAg -3'
miRNA:   3'- gCGCGU-------AUGCGugCgAGCUGA-GCUUg -5'
20421 3' -54 NC_004688.1 + 36341 0.68 0.828224
Target:  5'- cCGCGCAaacuucgGCGCggccucgaaccccAgGCUCGGCgCGAACg -3'
miRNA:   3'- -GCGCGUa------UGCG-------------UgCGAGCUGaGCUUG- -5'
20421 3' -54 NC_004688.1 + 31655 0.72 0.651525
Target:  5'- cCGCGCAggGCGgACaGCUCGGC-CGAGg -3'
miRNA:   3'- -GCGCGUa-UGCgUG-CGAGCUGaGCUUg -5'
20421 3' -54 NC_004688.1 + 31257 0.66 0.925323
Target:  5'- aCGCGCGUAUcgGcCGCGC-CGGCgaccugcgucugagCGAACa -3'
miRNA:   3'- -GCGCGUAUG--C-GUGCGaGCUGa-------------GCUUG- -5'
20421 3' -54 NC_004688.1 + 24544 0.66 0.917294
Target:  5'- uGCGCAUccgcgACaGCACGCugaUCGACaUCGGu- -3'
miRNA:   3'- gCGCGUA-----UG-CGUGCG---AGCUG-AGCUug -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.