miRNA display CGI


Results 1 - 17 of 17 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
13323 3' -48.3 NC_003409.1 + 85186 0.66 0.999245
Target:  5'- aGCCACC-GGCCaucaGAUAUA--GAGAGg -3'
miRNA:   3'- -CGGUGGaUCGGca--CUAUAUacUUCUC- -5'
13323 3' -48.3 NC_003409.1 + 119637 0.66 0.999069
Target:  5'- cCCACCUAGCggCGUGAcc--UGGAGGu -3'
miRNA:   3'- cGGUGGAUCG--GCACUauauACUUCUc -5'
13323 3' -48.3 NC_003409.1 + 23373 0.66 0.999069
Target:  5'- cCCACCUAGCggCGUGAcc--UGGAGGu -3'
miRNA:   3'- cGGUGGAUCG--GCACUauauACUUCUc -5'
13323 3' -48.3 NC_003409.1 + 134732 0.66 0.998858
Target:  5'- cGCCACCauuucAGCCugcagaUGAagUGUAUGAGGAa -3'
miRNA:   3'- -CGGUGGa----UCGGc-----ACU--AUAUACUUCUc -5'
13323 3' -48.3 NC_003409.1 + 26558 0.66 0.998858
Target:  5'- cCCAUCU-GCUG-GAUAUGUaggGAAGAGg -3'
miRNA:   3'- cGGUGGAuCGGCaCUAUAUA---CUUCUC- -5'
13323 3' -48.3 NC_003409.1 + 129938 0.66 0.998608
Target:  5'- cUCACCUGG-UGUGug--GUGAGGAGg -3'
miRNA:   3'- cGGUGGAUCgGCACuauaUACUUCUC- -5'
13323 3' -48.3 NC_003409.1 + 48343 0.68 0.994423
Target:  5'- -aCAUCUcAGCCG-GGUGUggGAAGAGc -3'
miRNA:   3'- cgGUGGA-UCGGCaCUAUAuaCUUCUC- -5'
13323 3' -48.3 NC_003409.1 + 90436 0.68 0.992373
Target:  5'- cGCCGCCUcGGCUGUcggggcgGGUGUA-GAGGAu -3'
miRNA:   3'- -CGGUGGA-UCGGCA-------CUAUAUaCUUCUc -5'
13323 3' -48.3 NC_003409.1 + 22308 0.69 0.988605
Target:  5'- uGCC-CCUAGCCGUuGcguaacggcccGUGUGUGuuGAGu -3'
miRNA:   3'- -CGGuGGAUCGGCA-C-----------UAUAUACuuCUC- -5'
13323 3' -48.3 NC_003409.1 + 134433 0.7 0.976382
Target:  5'- cGUCACUgGGCUGUGGU---UGGAGAGu -3'
miRNA:   3'- -CGGUGGaUCGGCACUAuauACUUCUC- -5'
13323 3' -48.3 NC_003409.1 + 88815 0.71 0.964103
Target:  5'- cCCGCCUGGCUGguauucGGUGUAccaugcauuugaUGAGGAGu -3'
miRNA:   3'- cGGUGGAUCGGCa-----CUAUAU------------ACUUCUC- -5'
13323 3' -48.3 NC_003409.1 + 50780 0.72 0.947933
Target:  5'- uGCCGCCUAGacaCCGgUGcgAaAUGAAGAGu -3'
miRNA:   3'- -CGGUGGAUC---GGC-ACuaUaUACUUCUC- -5'
13323 3' -48.3 NC_003409.1 + 43689 0.73 0.902852
Target:  5'- gGCCACCUgcugcccagaGGCCGUGGUGUacGUGcuGAc -3'
miRNA:   3'- -CGGUGGA----------UCGGCACUAUA--UACuuCUc -5'
13323 3' -48.3 NC_003409.1 + 99880 0.73 0.902852
Target:  5'- gGCUACCUaucGGCCGUGAgguUGUAUGAu--- -3'
miRNA:   3'- -CGGUGGA---UCGGCACU---AUAUACUucuc -5'
13323 3' -48.3 NC_003409.1 + 86631 0.74 0.896009
Target:  5'- cGCCGCCUAuCCGUGGccUGUcugguUGAGGAGc -3'
miRNA:   3'- -CGGUGGAUcGGCACU--AUAu----ACUUCUC- -5'
13323 3' -48.3 NC_003409.1 + 88368 0.76 0.785586
Target:  5'- cGUCGCgUAGCCGUGGUuugcauUGggGGGg -3'
miRNA:   3'- -CGGUGgAUCGGCACUAuau---ACuuCUC- -5'
13323 3' -48.3 NC_003409.1 + 85383 1 0.054216
Target:  5'- aGCCACCUAGCCGUGAUAUAUaGAGAGc -3'
miRNA:   3'- -CGGUGGAUCGGCACUAUAUAcUUCUC- -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.