miRNA display CGI


Results 1 - 20 of 37 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
12443 5' -57.2 NC_003324.1 + 1523 0.72 0.281694
Target:  5'- aGGAuCCGGCggcaGUGGUgcgcggCGCUAUGGCCCc -3'
miRNA:   3'- aCCUcGGCCG----UAUCA------GCGGUAUCGGG- -5'
12443 5' -57.2 NC_003324.1 + 3377 0.68 0.470035
Target:  5'- cGGcAGCCuGGUGUAGUC-CCAUuuCCCg -3'
miRNA:   3'- aCC-UCGG-CCGUAUCAGcGGUAucGGG- -5'
12443 5' -57.2 NC_003324.1 + 4845 0.68 0.480059
Target:  5'- aUGGcGCCGGCAacaacGUUgcgGCCGgucgAGCCCu -3'
miRNA:   3'- -ACCuCGGCCGUau---CAG---CGGUa---UCGGG- -5'
12443 5' -57.2 NC_003324.1 + 4978 0.66 0.59588
Target:  5'- cGGAGCCGaaaGCGauaaCGCCAgccugacGGCCCa -3'
miRNA:   3'- aCCUCGGC---CGUaucaGCGGUa------UCGGG- -5'
12443 5' -57.2 NC_003324.1 + 5545 0.67 0.552814
Target:  5'- gUGGGGCgGGCGacGcCGCCu--GCCUa -3'
miRNA:   3'- -ACCUCGgCCGUauCaGCGGuauCGGG- -5'
12443 5' -57.2 NC_003324.1 + 5889 0.66 0.628523
Target:  5'- uUGGGGaugaCGGCcug--CGCCuugAUGGCCCg -3'
miRNA:   3'- -ACCUCg---GCCGuaucaGCGG---UAUCGGG- -5'
12443 5' -57.2 NC_003324.1 + 11088 0.66 0.59588
Target:  5'- cGGuGCCaacuugaacGGCAacaccuacaaUGGccugCGCUAUGGCCCg -3'
miRNA:   3'- aCCuCGG---------CCGU----------AUCa---GCGGUAUCGGG- -5'
12443 5' -57.2 NC_003324.1 + 14472 0.67 0.552814
Target:  5'- cGGAccuuGCUGGCAccGUCGCgGaAGCCg -3'
miRNA:   3'- aCCU----CGGCCGUauCAGCGgUaUCGGg -5'
12443 5' -57.2 NC_003324.1 + 14520 0.72 0.267889
Target:  5'- uUGGAcGCCGGCAUGGgC-CCAgAGCCg -3'
miRNA:   3'- -ACCU-CGGCCGUAUCaGcGGUaUCGGg -5'
12443 5' -57.2 NC_003324.1 + 16061 0.68 0.470035
Target:  5'- aUGGcaucGCCGcGCAUcuuaucGUCGCCAacGCCCa -3'
miRNA:   3'- -ACCu---CGGC-CGUAu-----CAGCGGUauCGGG- -5'
12443 5' -57.2 NC_003324.1 + 16134 0.71 0.326476
Target:  5'- cGcGGCCGGCA-AGUCGUCGaacuUGGCCUc -3'
miRNA:   3'- aCcUCGGCCGUaUCAGCGGU----AUCGGG- -5'
12443 5' -57.2 NC_003324.1 + 16557 0.68 0.484097
Target:  5'- aGGGGCUGGCugcucaucgucUCGCCGUAGUUg -3'
miRNA:   3'- aCCUCGGCCGuauc-------AGCGGUAUCGGg -5'
12443 5' -57.2 NC_003324.1 + 18900 0.68 0.467049
Target:  5'- aUGGAGaCUGGCGccgaccuucgccgCGCCAUGGaCCCg -3'
miRNA:   3'- -ACCUC-GGCCGUauca---------GCGGUAUC-GGG- -5'
12443 5' -57.2 NC_003324.1 + 20408 0.67 0.5678
Target:  5'- cGGAGCCGuCAUcGUCGaucgcaagcagguacUCAUGGCCg -3'
miRNA:   3'- aCCUCGGCcGUAuCAGC---------------GGUAUCGGg -5'
12443 5' -57.2 NC_003324.1 + 20589 0.66 0.617626
Target:  5'- gGGAuCCGGUgcuGUGG-CGCCGUcGCCa -3'
miRNA:   3'- aCCUcGGCCG---UAUCaGCGGUAuCGGg -5'
12443 5' -57.2 NC_003324.1 + 21980 1.12 0.000363
Target:  5'- uUGGAGCCGGCAUAGUCGCCAUAGCCCg -3'
miRNA:   3'- -ACCUCGGCCGUAUCAGCGGUAUCGGG- -5'
12443 5' -57.2 NC_003324.1 + 24405 0.67 0.562436
Target:  5'- aGGAccgcguuGCCGGCAUGGUgcgcguccgcgaCGCCuucGCCa -3'
miRNA:   3'- aCCU-------CGGCCGUAUCA------------GCGGuauCGGg -5'
12443 5' -57.2 NC_003324.1 + 27228 0.67 0.563507
Target:  5'- aGGaAGUgGGCGgccaacGUCGCCAacgGGCUCa -3'
miRNA:   3'- aCC-UCGgCCGUau----CAGCGGUa--UCGGG- -5'
12443 5' -57.2 NC_003324.1 + 27632 0.68 0.470035
Target:  5'- cGuGAGCCGGCA-----GCCG-AGCCCg -3'
miRNA:   3'- aC-CUCGGCCGUaucagCGGUaUCGGG- -5'
12443 5' -57.2 NC_003324.1 + 28992 0.66 0.617626
Target:  5'- aGGAGCCGGaaucGGUCGCagcgaaggaCGaGGCCg -3'
miRNA:   3'- aCCUCGGCCgua-UCAGCG---------GUaUCGGg -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.