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
26548 3' -57.6 NC_005357.1 + 13321 0.65 0.510981
Target:  5'- uGUAG-GC--GGCGUAGgcuuucggcaggUCGCCGCCGa -3'
miRNA:   3'- -CAUCuCGuaCCGCAUCa-----------GGCGGCGGU- -5'
26548 3' -57.6 NC_005357.1 + 9983 0.66 0.492034
Target:  5'- aGUAGGG---GGCGUAGgggcagUCGCUGCCGu -3'
miRNA:   3'- -CAUCUCguaCCGCAUCa-----GGCGGCGGU- -5'
26548 3' -57.6 NC_005357.1 + 10371 0.66 0.492034
Target:  5'- --uGAGCAUGGCGUcgcauAGUUgugcgaGCgCGCCGg -3'
miRNA:   3'- cauCUCGUACCGCA-----UCAGg-----CG-GCGGU- -5'
26548 3' -57.6 NC_005357.1 + 4525 0.66 0.490991
Target:  5'- --uGAaCGUGGCGUgcugggcGGUCgUGCCGCCGc -3'
miRNA:   3'- cauCUcGUACCGCA-------UCAG-GCGGCGGU- -5'
26548 3' -57.6 NC_005357.1 + 18681 0.66 0.481649
Target:  5'- gGUGGcgccGGCAUGGCGcug-CUGCgCGCCAc -3'
miRNA:   3'- -CAUC----UCGUACCGCaucaGGCG-GCGGU- -5'
26548 3' -57.6 NC_005357.1 + 14189 0.66 0.461206
Target:  5'- --uGAGCcUGGCGcAGUCCGacCCGCg- -3'
miRNA:   3'- cauCUCGuACCGCaUCAGGC--GGCGgu -5'
26548 3' -57.6 NC_005357.1 + 28888 0.66 0.461206
Target:  5'- ----uGC-UGGCGUAGUugcuggCCGUCGCCGa -3'
miRNA:   3'- caucuCGuACCGCAUCA------GGCGGCGGU- -5'
26548 3' -57.6 NC_005357.1 + 2340 0.67 0.421755
Target:  5'- -aAGuGCGUGGCGcgcGUgCGCCGCa- -3'
miRNA:   3'- caUCuCGUACCGCau-CAgGCGGCGgu -5'
26548 3' -57.6 NC_005357.1 + 4243 0.67 0.402807
Target:  5'- cGUAGA---UGGCGUAGUCggUGCCgGCCGu -3'
miRNA:   3'- -CAUCUcguACCGCAUCAG--GCGG-CGGU- -5'
26548 3' -57.6 NC_005357.1 + 9612 0.68 0.384407
Target:  5'- ---cGGC-UGGUGUAGUCCGaCCGgCAg -3'
miRNA:   3'- caucUCGuACCGCAUCAGGC-GGCgGU- -5'
26548 3' -57.6 NC_005357.1 + 16934 0.68 0.375418
Target:  5'- cGUAGGGCAcGGCGccGUCCagcagcguGCCGCg- -3'
miRNA:   3'- -CAUCUCGUaCCGCauCAGG--------CGGCGgu -5'
26548 3' -57.6 NC_005357.1 + 8605 0.68 0.349316
Target:  5'- cGUGGGG-AUGGCGUAGg-CGUgGCCGg -3'
miRNA:   3'- -CAUCUCgUACCGCAUCagGCGgCGGU- -5'
26548 3' -57.6 NC_005357.1 + 17752 0.69 0.316567
Target:  5'- --uGGGCGUGGaCGUGGcCCGCgGCgGg -3'
miRNA:   3'- cauCUCGUACC-GCAUCaGGCGgCGgU- -5'
26548 3' -57.6 NC_005357.1 + 9989 0.7 0.293561
Target:  5'- --uGAGCGUGGCGgggucgaaAGUgCCGCgCGCCc -3'
miRNA:   3'- cauCUCGUACCGCa-------UCA-GGCG-GCGGu -5'
26548 3' -57.6 NC_005357.1 + 5887 0.7 0.264944
Target:  5'- aGUGGcauaggucgccAGCGUGGUG-AGUgUGCCGCCGg -3'
miRNA:   3'- -CAUC-----------UCGUACCGCaUCAgGCGGCGGU- -5'
26548 3' -57.6 NC_005357.1 + 12884 0.71 0.251504
Target:  5'- --cGAGCAcGGCGUGGguguccUCUGCgGCCAg -3'
miRNA:   3'- cauCUCGUaCCGCAUC------AGGCGgCGGU- -5'
26548 3' -57.6 NC_005357.1 + 29214 0.72 0.220359
Target:  5'- -cGGAcgcgcGCAUGGCGUccAGUCCGCCGa-- -3'
miRNA:   3'- caUCU-----CGUACCGCA--UCAGGCGGCggu -5'
26548 3' -57.6 NC_005357.1 + 6609 1.09 0.000389
Target:  5'- cGUAGAGCAUGGCGUAGUCCGCCGCCAg -3'
miRNA:   3'- -CAUCUCGUACCGCAUCAGGCGGCGGU- -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.