miRNA display CGI


Results 1 - 20 of 25 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
10423 5' -57.8 NC_002687.1 + 86282 0.66 0.96287
Target:  5'- gGGAcGCUCCCGACUggCAUGg-GCAUg -3'
miRNA:   3'- -CCU-CGAGGGCUGAggGUGCagCGUAg -5'
10423 5' -57.8 NC_002687.1 + 283273 0.66 0.959602
Target:  5'- --cGCUUCCGACaccCCCGCcUCgGCAUCu -3'
miRNA:   3'- ccuCGAGGGCUGa--GGGUGcAG-CGUAG- -5'
10423 5' -57.8 NC_002687.1 + 207500 0.66 0.958583
Target:  5'- gGGAGCUCCUGGaucgaaucaggugcCUCgaagaCACGgugaagaaucUCGCAUCg -3'
miRNA:   3'- -CCUCGAGGGCU--------------GAGg----GUGC----------AGCGUAG- -5'
10423 5' -57.8 NC_002687.1 + 217098 0.66 0.95614
Target:  5'- cGAGUgcUCCGGCUCCCACGagUGC-UCc -3'
miRNA:   3'- cCUCGa-GGGCUGAGGGUGCa-GCGuAG- -5'
10423 5' -57.8 NC_002687.1 + 125900 0.66 0.95614
Target:  5'- aGGGGUUCCCGucccuCUCCCA-GUgaGCAg- -3'
miRNA:   3'- -CCUCGAGGGCu----GAGGGUgCAg-CGUag -5'
10423 5' -57.8 NC_002687.1 + 195731 0.66 0.952482
Target:  5'- gGGGGCUCCUGcACUCCaACGaUGCu-- -3'
miRNA:   3'- -CCUCGAGGGC-UGAGGgUGCaGCGuag -5'
10423 5' -57.8 NC_002687.1 + 19896 0.66 0.952482
Target:  5'- gGGGGCUCCUGcACUCCaACGaUGCu-- -3'
miRNA:   3'- -CCUCGAGGGC-UGAGGgUGCaGCGuag -5'
10423 5' -57.8 NC_002687.1 + 224262 0.66 0.952482
Target:  5'- cGGAGCcaUCCCGA-UCCCACcaaGCuUCa -3'
miRNA:   3'- -CCUCG--AGGGCUgAGGGUGcagCGuAG- -5'
10423 5' -57.8 NC_002687.1 + 92676 0.66 0.952482
Target:  5'- uGGGGacuUCuuGugUagcccgCCCACGUCGCGUg -3'
miRNA:   3'- -CCUCg--AGggCugA------GGGUGCAGCGUAg -5'
10423 5' -57.8 NC_002687.1 + 221322 0.66 0.952482
Target:  5'- gGGGGCUCCUGcACUCCaACGaUGCu-- -3'
miRNA:   3'- -CCUCGAGGGC-UGAGGgUGCaGCGuag -5'
10423 5' -57.8 NC_002687.1 + 28174 0.66 0.948625
Target:  5'- uGGAGgcccacgaagaaCUgUCGACcauUCCCAUGUCGCGUa -3'
miRNA:   3'- -CCUC------------GAgGGCUG---AGGGUGCAGCGUAg -5'
10423 5' -57.8 NC_002687.1 + 215489 0.67 0.944148
Target:  5'- aGGAGCgcaUCCCGaaggccagucaucGCUCUCGaagGUCGCGUa -3'
miRNA:   3'- -CCUCG---AGGGC-------------UGAGGGUg--CAGCGUAg -5'
10423 5' -57.8 NC_002687.1 + 109404 0.67 0.940302
Target:  5'- cGGAGUUCCgauCGACgCCaacagaaGCGUgGCAUCc -3'
miRNA:   3'- -CCUCGAGG---GCUGaGGg------UGCAgCGUAG- -5'
10423 5' -57.8 NC_002687.1 + 315867 0.67 0.935832
Target:  5'- gGGAGgggCCCGACgcgUCCGCaucgaGUUGCAUCc -3'
miRNA:   3'- -CCUCga-GGGCUGa--GGGUG-----CAGCGUAG- -5'
10423 5' -57.8 NC_002687.1 + 308005 0.67 0.931154
Target:  5'- cGGuGCugUCCCGACcggUCCCACGgCGaguaCAUCg -3'
miRNA:   3'- -CCuCG--AGGGCUG---AGGGUGCaGC----GUAG- -5'
10423 5' -57.8 NC_002687.1 + 249010 0.67 0.926269
Target:  5'- ----aUCCCGACagCCAC-UCGCAUCa -3'
miRNA:   3'- ccucgAGGGCUGagGGUGcAGCGUAG- -5'
10423 5' -57.8 NC_002687.1 + 73965 0.68 0.904655
Target:  5'- aGGAGCUUCCGGCUUgaACGUC-C-UCg -3'
miRNA:   3'- -CCUCGAGGGCUGAGggUGCAGcGuAG- -5'
10423 5' -57.8 NC_002687.1 + 212330 0.68 0.904072
Target:  5'- uGGAGCgguUCCCG-UUCCCcagggcuguggauGCGUCGUccGUCa -3'
miRNA:   3'- -CCUCG---AGGGCuGAGGG-------------UGCAGCG--UAG- -5'
10423 5' -57.8 NC_002687.1 + 71576 0.68 0.898737
Target:  5'- uGAGUUCUgGucaguaccugacGCUCCCcaAUGUCGCGUCa -3'
miRNA:   3'- cCUCGAGGgC------------UGAGGG--UGCAGCGUAG- -5'
10423 5' -57.8 NC_002687.1 + 148551 0.69 0.886302
Target:  5'- cGGAcGCgCCCGGCaagUCCCuuaccGCGUCGCGg- -3'
miRNA:   3'- -CCU-CGaGGGCUG---AGGG-----UGCAGCGUag -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.