miRNA display CGI


Results 1 - 20 of 63 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
27660 3' -60.5 NC_005882.1 + 10849 0.66 0.390402
Target:  5'- cGGGGCu-CGU-GACG-GUGCuGUCCGCg -3'
miRNA:   3'- -CUCCGcuGCAgCUGCgCGCG-CAGGCG- -5'
27660 3' -60.5 NC_005882.1 + 19853 0.66 0.386871
Target:  5'- -cGGCGAgaaCGUCGAUccgaaGCGCGCcgagcuggacggCCGCa -3'
miRNA:   3'- cuCCGCU---GCAGCUG-----CGCGCGca----------GGCG- -5'
27660 3' -60.5 NC_005882.1 + 868 0.66 0.381614
Target:  5'- uGAcGC-ACGUCGACGCGCuCGaauggcucaguUCCGCc -3'
miRNA:   3'- -CUcCGcUGCAGCUGCGCGcGC-----------AGGCG- -5'
27660 3' -60.5 NC_005882.1 + 17165 0.66 0.381614
Target:  5'- --aGCGGCG-CGaccaGCGCcuGCGCGUCgGCa -3'
miRNA:   3'- cucCGCUGCaGC----UGCG--CGCGCAGgCG- -5'
27660 3' -60.5 NC_005882.1 + 16766 0.66 0.372959
Target:  5'- -cGGCcuGCG-CgGACGCGCGCGUCgacguCGCc -3'
miRNA:   3'- cuCCGc-UGCaG-CUGCGCGCGCAG-----GCG- -5'
27660 3' -60.5 NC_005882.1 + 31445 0.66 0.372959
Target:  5'- cGGGCuGCGcCGGCaGC-CGCGUCaCGCc -3'
miRNA:   3'- cUCCGcUGCaGCUG-CGcGCGCAG-GCG- -5'
27660 3' -60.5 NC_005882.1 + 3605 0.66 0.364438
Target:  5'- cGAGuGCGcagcGCGUCGACGCcGCuuGCGUCgaucacguCGCc -3'
miRNA:   3'- -CUC-CGC----UGCAGCUGCG-CG--CGCAG--------GCG- -5'
27660 3' -60.5 NC_005882.1 + 12724 0.66 0.364438
Target:  5'- ---uCGACGgcaUCG-CGCGCGCcGUCUGCg -3'
miRNA:   3'- cuccGCUGC---AGCuGCGCGCG-CAGGCG- -5'
27660 3' -60.5 NC_005882.1 + 8651 0.66 0.363593
Target:  5'- aGGGCuGCGUCGACGgCGUacgcuuuucgcagGCG-CUGCg -3'
miRNA:   3'- cUCCGcUGCAGCUGC-GCG-------------CGCaGGCG- -5'
27660 3' -60.5 NC_005882.1 + 8113 0.66 0.356052
Target:  5'- --uGCGGCGUUGA-GCGUGCGuugcaagaUCUGCa -3'
miRNA:   3'- cucCGCUGCAGCUgCGCGCGC--------AGGCG- -5'
27660 3' -60.5 NC_005882.1 + 2192 0.66 0.356052
Target:  5'- cAGGCGAuCGUC-ACGCaG-GCGUuuGCg -3'
miRNA:   3'- cUCCGCU-GCAGcUGCG-CgCGCAggCG- -5'
27660 3' -60.5 NC_005882.1 + 17270 0.66 0.356052
Target:  5'- cGGGCaagcCGUUccUGCaGCGCGUCCGCg -3'
miRNA:   3'- cUCCGcu--GCAGcuGCG-CGCGCAGGCG- -5'
27660 3' -60.5 NC_005882.1 + 23180 0.66 0.347804
Target:  5'- cGGGGCGAuCGcguacaUCGAUGCGC-CGaUCgGCa -3'
miRNA:   3'- -CUCCGCU-GC------AGCUGCGCGcGC-AGgCG- -5'
27660 3' -60.5 NC_005882.1 + 6764 0.66 0.347804
Target:  5'- cGAGGCGGaGUCGGuuauuCGCGgcaaccUGCGUgCCGCc -3'
miRNA:   3'- -CUCCGCUgCAGCU-----GCGC------GCGCA-GGCG- -5'
27660 3' -60.5 NC_005882.1 + 27599 0.67 0.339693
Target:  5'- -uGGCGACGcaggccgCGGC-CGCGgCGUCCcuGCa -3'
miRNA:   3'- cuCCGCUGCa------GCUGcGCGC-GCAGG--CG- -5'
27660 3' -60.5 NC_005882.1 + 21289 0.67 0.339693
Target:  5'- -cGGCGACGgCGGCcgGCGaCGUcaUCCGCa -3'
miRNA:   3'- cuCCGCUGCaGCUG--CGC-GCGc-AGGCG- -5'
27660 3' -60.5 NC_005882.1 + 21710 0.67 0.339693
Target:  5'- -cGGCGACGcccgagccgggCGAaaugaaggucCGCGCGCG-CCGUc -3'
miRNA:   3'- cuCCGCUGCa----------GCU----------GCGCGCGCaGGCG- -5'
27660 3' -60.5 NC_005882.1 + 2066 0.67 0.331719
Target:  5'- -cGGUGAUGuccaaUCGGCGCaGCGCGagcaCGCg -3'
miRNA:   3'- cuCCGCUGC-----AGCUGCG-CGCGCag--GCG- -5'
27660 3' -60.5 NC_005882.1 + 25548 0.67 0.33093
Target:  5'- cAGGCGaagcaaGCGgcccuugCGACccggcugGCGCGCGgcgCCGCg -3'
miRNA:   3'- cUCCGC------UGCa------GCUG-------CGCGCGCa--GGCG- -5'
27660 3' -60.5 NC_005882.1 + 14611 0.67 0.323885
Target:  5'- -uGGCGACaaGUCGAuccuCGCGUucGUGaUCCGCu -3'
miRNA:   3'- cuCCGCUG--CAGCU----GCGCG--CGC-AGGCG- -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.