miRNA display CGI


Results 1 - 18 of 18 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
22584 3' -59.3 NC_005091.1 + 15868 0.66 0.546601
Target:  5'- uUCG-GCCgCGcaaacCGggGGCGUCGGCa -3'
miRNA:   3'- -AGCaCGG-GCuac--GCuaCCGCAGCCGc -5'
22584 3' -59.3 NC_005091.1 + 41865 0.66 0.536301
Target:  5'- cUCGUGCgCCGAguaaaUGuCGA-GGCcgcacGUCGGCa -3'
miRNA:   3'- -AGCACG-GGCU-----AC-GCUaCCG-----CAGCCGc -5'
22584 3' -59.3 NC_005091.1 + 33690 0.66 0.52607
Target:  5'- gCGUGaagaaCUCGGUcGCGA-GGCGaUCGGCGc -3'
miRNA:   3'- aGCAC-----GGGCUA-CGCUaCCGC-AGCCGC- -5'
22584 3' -59.3 NC_005091.1 + 17930 0.67 0.476136
Target:  5'- gUCGUGCgguagacggCCGgcGCGAcgggUGuGCGuUCGGCGg -3'
miRNA:   3'- -AGCACG---------GGCuaCGCU----AC-CGC-AGCCGC- -5'
22584 3' -59.3 NC_005091.1 + 31597 0.68 0.437011
Target:  5'- gCGUGCCCGcgaagGCugcuUGGCGuucuucgaacguaUCGGCGg -3'
miRNA:   3'- aGCACGGGCua---CGcu--ACCGC-------------AGCCGC- -5'
22584 3' -59.3 NC_005091.1 + 6819 0.68 0.419516
Target:  5'- cCGUGCCgGGcUGCuucuuguUGGCGaCGGCGa -3'
miRNA:   3'- aGCACGGgCU-ACGcu-----ACCGCaGCCGC- -5'
22584 3' -59.3 NC_005091.1 + 55211 0.68 0.401567
Target:  5'- aCGcgGCCCG-UGCGcgGGgGUcCGGCu -3'
miRNA:   3'- aGCa-CGGGCuACGCuaCCgCA-GCCGc -5'
22584 3' -59.3 NC_005091.1 + 32797 0.69 0.375578
Target:  5'- uUCGuUGCggCgGAaGCGAUGGCGUaGGCGg -3'
miRNA:   3'- -AGC-ACG--GgCUaCGCUACCGCAgCCGC- -5'
22584 3' -59.3 NC_005091.1 + 45566 0.69 0.375578
Target:  5'- aUCGgGUcgCCGAUGUGAagcuggccGGCGUCGGCu -3'
miRNA:   3'- -AGCaCG--GGCUACGCUa-------CCGCAGCCGc -5'
22584 3' -59.3 NC_005091.1 + 14521 0.69 0.358894
Target:  5'- gCGUGCCgcuCGAUGCcggGGCGaCGGCu -3'
miRNA:   3'- aGCACGG---GCUACGcuaCCGCaGCCGc -5'
22584 3' -59.3 NC_005091.1 + 40643 0.7 0.334856
Target:  5'- cCGUGCUCGgcGCGGgauaccgacucGGCGgCGGCGa -3'
miRNA:   3'- aGCACGGGCuaCGCUa----------CCGCaGCCGC- -5'
22584 3' -59.3 NC_005091.1 + 23495 0.7 0.334075
Target:  5'- ---cGCgCGcgGCGAUGGCGcugcucggucuguUCGGCGg -3'
miRNA:   3'- agcaCGgGCuaCGCUACCGC-------------AGCCGC- -5'
22584 3' -59.3 NC_005091.1 + 9537 0.7 0.312016
Target:  5'- gUCGUGCCCGcacccGUGaCGA-GGCugccguGUCGGCa -3'
miRNA:   3'- -AGCACGGGC-----UAC-GCUaCCG------CAGCCGc -5'
22584 3' -59.3 NC_005091.1 + 8231 0.7 0.296744
Target:  5'- aCGUG-CUGAUcGCGGUacugggcGGCGUCGGCa -3'
miRNA:   3'- aGCACgGGCUA-CGCUA-------CCGCAGCCGc -5'
22584 3' -59.3 NC_005091.1 + 14298 0.72 0.243892
Target:  5'- cCGUGCCCgucacGAUGCGuaucggcuucgcgGUGuCGUCGGCGa -3'
miRNA:   3'- aGCACGGG-----CUACGC-------------UACcGCAGCCGC- -5'
22584 3' -59.3 NC_005091.1 + 14416 0.72 0.226757
Target:  5'- gCGUGCCUGcgGUGAgagcgaccGGCGUCGGg- -3'
miRNA:   3'- aGCACGGGCuaCGCUa-------CCGCAGCCgc -5'
22584 3' -59.3 NC_005091.1 + 25307 0.73 0.215543
Target:  5'- cUCGUGCUCGGcgugaagGUGAUGGCGUCGa-- -3'
miRNA:   3'- -AGCACGGGCUa------CGCUACCGCAGCcgc -5'
22584 3' -59.3 NC_005091.1 + 23119 1.09 0.000454
Target:  5'- uUCGUGCCCGAUGCGAUGGCGUCGGCGg -3'
miRNA:   3'- -AGCACGGGCUACGCUACCGCAGCCGC- -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.