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
13367 3' -56.6 NC_003409.1 + 133028 0.75 0.404698
Target:  5'- cGGUGGugG-CAGagUCGGGCGCGGUGc -3'
miRNA:   3'- -UCAUUugCuGUCg-AGCCCGCGCCGCu -5'
13367 3' -56.6 NC_003409.1 + 115766 0.66 0.883187
Target:  5'- ----uGCGAuCAGUcgaGGGCGCGGCu- -3'
miRNA:   3'- ucauuUGCU-GUCGag-CCCGCGCCGcu -5'
13367 3' -56.6 NC_003409.1 + 114394 0.66 0.845572
Target:  5'- ---uGGCGACAGCg-GGGUGgGGCu- -3'
miRNA:   3'- ucauUUGCUGUCGagCCCGCgCCGcu -5'
13367 3' -56.6 NC_003409.1 + 113232 0.68 0.772915
Target:  5'- cGGUGuggcuGCGACcgaagacgguaacgGGCUCGGGauaGgGGCGGc -3'
miRNA:   3'- -UCAUu----UGCUG--------------UCGAGCCCg--CgCCGCU- -5'
13367 3' -56.6 NC_003409.1 + 104818 0.68 0.766321
Target:  5'- cGGUAAcaaaggacGCGGCGGaaagaCGGGaCGUGGCGGa -3'
miRNA:   3'- -UCAUU--------UGCUGUCga---GCCC-GCGCCGCU- -5'
13367 3' -56.6 NC_003409.1 + 93360 0.68 0.765374
Target:  5'- --gAAACuuCAGCUgcggaggauguugUGGGCGUGGCGAc -3'
miRNA:   3'- ucaUUUGcuGUCGA-------------GCCCGCGCCGCU- -5'
13367 3' -56.6 NC_003409.1 + 91880 0.66 0.87609
Target:  5'- uAGUAGGCccauGugGGCUUGGGaGUGGCc- -3'
miRNA:   3'- -UCAUUUG----CugUCGAGCCCgCGCCGcu -5'
13367 3' -56.6 NC_003409.1 + 89376 0.72 0.545114
Target:  5'- uGGgagAGAgGACAGCUUaagGGGCGUGGUGu -3'
miRNA:   3'- -UCa--UUUgCUGUCGAG---CCCGCGCCGCu -5'
13367 3' -56.6 NC_003409.1 + 88689 0.66 0.883187
Target:  5'- -----cCGGCAgGCagGGGCGCGGgGGc -3'
miRNA:   3'- ucauuuGCUGU-CGagCCCGCGCCgCU- -5'
13367 3' -56.6 NC_003409.1 + 87590 0.66 0.853509
Target:  5'- -----cCGACAaauguucccGCUUGGGCguGCGGCGGa -3'
miRNA:   3'- ucauuuGCUGU---------CGAGCCCG--CGCCGCU- -5'
13367 3' -56.6 NC_003409.1 + 87366 0.66 0.883187
Target:  5'- uGUAAcAUGAUGGUUucgcauaccCGGGCGCGGgGGc -3'
miRNA:   3'- uCAUU-UGCUGUCGA---------GCCCGCGCCgCU- -5'
13367 3' -56.6 NC_003409.1 + 87169 0.69 0.717703
Target:  5'- gGGUGGuGCGcCGGCggaGGGCGUGGCcGAc -3'
miRNA:   3'- -UCAUU-UGCuGUCGag-CCCGCGCCG-CU- -5'
13367 3' -56.6 NC_003409.1 + 67791 0.72 0.545114
Target:  5'- aGGUcGACGAUcGCggUGGGUGCGGCGc -3'
miRNA:   3'- -UCAuUUGCUGuCGa-GCCCGCGCCGCu -5'
13367 3' -56.6 NC_003409.1 + 56030 0.68 0.746199
Target:  5'- aGGUccGCGACGGCgucgaccaGGGCGUcaaugucGGCGAc -3'
miRNA:   3'- -UCAuuUGCUGUCGag------CCCGCG-------CCGCU- -5'
13367 3' -56.6 NC_003409.1 + 46194 0.67 0.829121
Target:  5'- uGUAGuuAUGGCGGCcacgUGGGcCGgGGCGAu -3'
miRNA:   3'- uCAUU--UGCUGUCGa---GCCC-GCgCCGCU- -5'
13367 3' -56.6 NC_003409.1 + 45930 0.67 0.829121
Target:  5'- cGGUGGuACGGCGcgagguacGUUCGGaCGCGGUGAc -3'
miRNA:   3'- -UCAUU-UGCUGU--------CGAGCCcGCGCCGCU- -5'
13367 3' -56.6 NC_003409.1 + 41989 0.7 0.646804
Target:  5'- uGUGAGCGAUGGCac-GGCGCaGCGAg -3'
miRNA:   3'- uCAUUUGCUGUCGagcCCGCGcCGCU- -5'
13367 3' -56.6 NC_003409.1 + 40606 0.66 0.861245
Target:  5'- gAGUuccGGACGugAagGCUagucuaguagaGGGCGCGGCGc -3'
miRNA:   3'- -UCA---UUUGCugU--CGAg----------CCCGCGCCGCu -5'
13367 3' -56.6 NC_003409.1 + 35917 0.66 0.861245
Target:  5'- uGUAggUGACcGCUCaGGGa-CGGCGGc -3'
miRNA:   3'- uCAUuuGCUGuCGAG-CCCgcGCCGCU- -5'
13367 3' -56.6 NC_003409.1 + 35366 0.71 0.626313
Target:  5'- --gGAGCGGacuCGGUg-GGGCGCGGCGGa -3'
miRNA:   3'- ucaUUUGCU---GUCGagCCCGCGCCGCU- -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.