miRNA display CGI


Results 1 - 20 of 24 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
12449 3' -56.7 NC_003324.1 + 35464 0.66 0.676197
Target:  5'- cGCGGGCG-GCCGAGCagGcugcagCAGCaCAGg -3'
miRNA:   3'- -UGCCUGUgCGGCUUGagCa-----GUCG-GUC- -5'
12449 3' -56.7 NC_003324.1 + 29484 0.66 0.665421
Target:  5'- uGCGGGCGCGUCGGGCgcaucUCGguaacCGGCUu- -3'
miRNA:   3'- -UGCCUGUGCGGCUUG-----AGCa----GUCGGuc -5'
12449 3' -56.7 NC_003324.1 + 44423 0.66 0.665421
Target:  5'- uGCGGGCaccggGCGCCGAGaCUUcgGUCgcugauGGCCGGc -3'
miRNA:   3'- -UGCCUG-----UGCGGCUU-GAG--CAG------UCGGUC- -5'
12449 3' -56.7 NC_003324.1 + 43565 0.66 0.665421
Target:  5'- ---cACACGCCGcGCaaCGUCAGCCGa -3'
miRNA:   3'- ugccUGUGCGGCuUGa-GCAGUCGGUc -5'
12449 3' -56.7 NC_003324.1 + 3634 0.66 0.665421
Target:  5'- gGCGGGCGCcaCCGAagcGC-CGUuugCAGCCGGu -3'
miRNA:   3'- -UGCCUGUGc-GGCU---UGaGCA---GUCGGUC- -5'
12449 3' -56.7 NC_003324.1 + 23683 0.66 0.65894
Target:  5'- cACGG-CGCGCCGGGCUucacaucgaUGUCGacugccucgauguccGCCGGc -3'
miRNA:   3'- -UGCCuGUGCGGCUUGA---------GCAGU---------------CGGUC- -5'
12449 3' -56.7 NC_003324.1 + 18041 0.66 0.654615
Target:  5'- cUGGAagACGCacuucgacuauuCGAACUCGUCgcGGCCGGc -3'
miRNA:   3'- uGCCUg-UGCG------------GCUUGAGCAG--UCGGUC- -5'
12449 3' -56.7 NC_003324.1 + 16227 0.67 0.611285
Target:  5'- -gGGGCAgGCCGuGC-CGacgCGGCCAGc -3'
miRNA:   3'- ugCCUGUgCGGCuUGaGCa--GUCGGUC- -5'
12449 3' -56.7 NC_003324.1 + 17414 0.67 0.578938
Target:  5'- cGCGuGcCACGUCGccCUCGUCGGUCAu -3'
miRNA:   3'- -UGC-CuGUGCGGCuuGAGCAGUCGGUc -5'
12449 3' -56.7 NC_003324.1 + 25311 0.68 0.546973
Target:  5'- gGCGGcCAggUGCuCGAAC-CGUCAGUCGGc -3'
miRNA:   3'- -UGCCuGU--GCG-GCUUGaGCAGUCGGUC- -5'
12449 3' -56.7 NC_003324.1 + 33507 0.68 0.542751
Target:  5'- cACGGACaACGCCGAugaagcgGCUCGggcguUCAucgcaagcuucuccGCCAGu -3'
miRNA:   3'- -UGCCUG-UGCGGCU-------UGAGC-----AGU--------------CGGUC- -5'
12449 3' -56.7 NC_003324.1 + 28145 0.7 0.445531
Target:  5'- gGCGGAUGCgGCCGAcCUUGUaguuGCCGGc -3'
miRNA:   3'- -UGCCUGUG-CGGCUuGAGCAgu--CGGUC- -5'
12449 3' -56.7 NC_003324.1 + 27487 0.7 0.4265
Target:  5'- gGCGuGACGCaagGCCGGGCUUGaaccUCAGCgCAGg -3'
miRNA:   3'- -UGC-CUGUG---CGGCUUGAGC----AGUCG-GUC- -5'
12449 3' -56.7 NC_003324.1 + 21308 0.7 0.40796
Target:  5'- gAUGGAaaCGCGCCGucgccuucggcAGCUCGaaAGCCAGg -3'
miRNA:   3'- -UGCCU--GUGCGGC-----------UUGAGCagUCGGUC- -5'
12449 3' -56.7 NC_003324.1 + 43606 0.71 0.372434
Target:  5'- gGCGGuCGCGCuCGAcuGCUCGgacagcaAGCCGGa -3'
miRNA:   3'- -UGCCuGUGCG-GCU--UGAGCag-----UCGGUC- -5'
12449 3' -56.7 NC_003324.1 + 24383 0.71 0.372434
Target:  5'- uACGGGCugGCCGAGaUgGUCGGgCAu -3'
miRNA:   3'- -UGCCUGugCGGCUUgAgCAGUCgGUc -5'
12449 3' -56.7 NC_003324.1 + 48755 0.71 0.372434
Target:  5'- -aGGugAUGCCGAGaugCG-CAGCCAGc -3'
miRNA:   3'- ugCCugUGCGGCUUga-GCaGUCGGUC- -5'
12449 3' -56.7 NC_003324.1 + 36715 0.71 0.347206
Target:  5'- uGCGGAUGCGCUGGcGCUgG-UAGCCAGu -3'
miRNA:   3'- -UGCCUGUGCGGCU-UGAgCaGUCGGUC- -5'
12449 3' -56.7 NC_003324.1 + 24829 0.72 0.323224
Target:  5'- gGCGGAuCGCGCCGAcaagGUCGGCCGu -3'
miRNA:   3'- -UGCCU-GUGCGGCUugagCAGUCGGUc -5'
12449 3' -56.7 NC_003324.1 + 1541 0.73 0.300499
Target:  5'- gGCGGAaaucCGCGCCGGAUaCGUCGcGCCGu -3'
miRNA:   3'- -UGCCU----GUGCGGCUUGaGCAGU-CGGUc -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.