miRNA display CGI


Results 1 - 20 of 52 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
25207 3' -57.1 NC_005336.1 + 128290 0.72 0.547262
Target:  5'- cCGCaAGUCCUCGCUGGUCgagcGCCUa-- -3'
miRNA:   3'- aGCG-UCAGGAGCGGCUAGa---UGGGcag -5'
25207 3' -57.1 NC_005336.1 + 127730 0.68 0.766801
Target:  5'- cCGCg--CCUCGCUGAUC-GCCCGc- -3'
miRNA:   3'- aGCGucaGGAGCGGCUAGaUGGGCag -5'
25207 3' -57.1 NC_005336.1 + 123811 0.66 0.875756
Target:  5'- cUGCAcagCCUCGCCaccuUCUGCUCGUg -3'
miRNA:   3'- aGCGUca-GGAGCGGcu--AGAUGGGCAg -5'
25207 3' -57.1 NC_005336.1 + 115923 0.7 0.638075
Target:  5'- cCGCAGgaagugaCCUCGCCGAccacgaagcUCguggagACCUGUCu -3'
miRNA:   3'- aGCGUCa------GGAGCGGCU---------AGa-----UGGGCAG- -5'
25207 3' -57.1 NC_005336.1 + 115836 0.72 0.547262
Target:  5'- -aGCAcGUCCUCGCCGG---GCCCGg- -3'
miRNA:   3'- agCGU-CAGGAGCGGCUagaUGGGCag -5'
25207 3' -57.1 NC_005336.1 + 113980 0.68 0.7752
Target:  5'- aUCGCGGUgCCUUgcgaGCCGcgCUcgccggaGCUCGUCg -3'
miRNA:   3'- -AGCGUCA-GGAG----CGGCuaGA-------UGGGCAG- -5'
25207 3' -57.1 NC_005336.1 + 101700 0.68 0.757357
Target:  5'- cCGCGGUCCUccucgaCGCUGAgccacacgCUucGCUCGUCg -3'
miRNA:   3'- aGCGUCAGGA------GCGGCUa-------GA--UGGGCAG- -5'
25207 3' -57.1 NC_005336.1 + 97670 0.67 0.785325
Target:  5'- cCGCGGcgCCUCGg-GGUC-GCCCGUCa -3'
miRNA:   3'- aGCGUCa-GGAGCggCUAGaUGGGCAG- -5'
25207 3' -57.1 NC_005336.1 + 90257 0.68 0.757357
Target:  5'- -gGCAGcCCUCGUCGAUCaUGCUCu-- -3'
miRNA:   3'- agCGUCaGGAGCGGCUAG-AUGGGcag -5'
25207 3' -57.1 NC_005336.1 + 89725 0.69 0.692709
Target:  5'- cUCGUAGgCCUucugcaucuccgcaaCGCCGAUCU-CCgCGUCg -3'
miRNA:   3'- -AGCGUCaGGA---------------GCGGCUAGAuGG-GCAG- -5'
25207 3' -57.1 NC_005336.1 + 86027 0.67 0.820674
Target:  5'- -gGCGG-CCUCGCUGGccgugCUGCCuuuCGUCa -3'
miRNA:   3'- agCGUCaGGAGCGGCUa----GAUGG---GCAG- -5'
25207 3' -57.1 NC_005336.1 + 84669 0.69 0.688696
Target:  5'- gCGCGGUCUgguccuugCGCCGcgCUACCaCGa- -3'
miRNA:   3'- aGCGUCAGGa-------GCGGCuaGAUGG-GCag -5'
25207 3' -57.1 NC_005336.1 + 81155 0.69 0.718579
Target:  5'- cUCGUAGUCCgCGUCGGaCacgaGCCCGUUg -3'
miRNA:   3'- -AGCGUCAGGaGCGGCUaGa---UGGGCAG- -5'
25207 3' -57.1 NC_005336.1 + 80428 0.7 0.627905
Target:  5'- cUGUGGUUCaUCGCCGggCUGCUgGUCa -3'
miRNA:   3'- aGCGUCAGG-AGCGGCuaGAUGGgCAG- -5'
25207 3' -57.1 NC_005336.1 + 79526 0.66 0.875756
Target:  5'- cUGguGggCCUCGCCGAcg-ACCCGcCc -3'
miRNA:   3'- aGCguCa-GGAGCGGCUagaUGGGCaG- -5'
25207 3' -57.1 NC_005336.1 + 75587 0.66 0.845439
Target:  5'- aCGCGGcgcUCgCUCaGCCGGUCgaacagcaGCCUGUCu -3'
miRNA:   3'- aGCGUC---AG-GAG-CGGCUAGa-------UGGGCAG- -5'
25207 3' -57.1 NC_005336.1 + 68891 0.7 0.627905
Target:  5'- -aGCAcGUCCgugaGCaCGGUCUGCCCGgUCu -3'
miRNA:   3'- agCGU-CAGGag--CG-GCUAGAUGGGC-AG- -5'
25207 3' -57.1 NC_005336.1 + 60438 0.66 0.861005
Target:  5'- aUC-CAGUCCUUGaCCGAgcccacgaUGCCCGcCa -3'
miRNA:   3'- -AGcGUCAGGAGC-GGCUag------AUGGGCaG- -5'
25207 3' -57.1 NC_005336.1 + 56580 0.66 0.868485
Target:  5'- cCGCGGcag-CGCCGcgC-GCCCGUCg -3'
miRNA:   3'- aGCGUCaggaGCGGCuaGaUGGGCAG- -5'
25207 3' -57.1 NC_005336.1 + 55818 0.66 0.868485
Target:  5'- cCGCGuGUCCgccugcaacugCGCCGAcaUGCCCGcCa -3'
miRNA:   3'- aGCGU-CAGGa----------GCGGCUagAUGGGCaG- -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.