miRNA display CGI


Results 1 - 20 of 24 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
12197 5' -54.7 NC_003309.1 + 44853 0.65 0.798057
Target:  5'- gGCGGCGAUCcgcgcaaGGuUCGcUCGCuuUGuCGCa -3'
miRNA:   3'- gCGCCGCUAG-------UC-AGC-AGCGcuAU-GCG- -5'
12197 5' -54.7 NC_003309.1 + 18751 0.66 0.765599
Target:  5'- gGCGGCGAU-AGUCGgcgccuugucgagCGUGAU-CGUc -3'
miRNA:   3'- gCGCCGCUAgUCAGCa------------GCGCUAuGCG- -5'
12197 5' -54.7 NC_003309.1 + 19179 0.66 0.759529
Target:  5'- -uCGGCGAcgUAGcUCGUCGCGugguuCGCc -3'
miRNA:   3'- gcGCCGCUa-GUC-AGCAGCGCuau--GCG- -5'
12197 5' -54.7 NC_003309.1 + 27934 0.66 0.756476
Target:  5'- uCGCGGCGggCAcgcgcaauugauccGUCGUUGCucGAguaugggGCGCc -3'
miRNA:   3'- -GCGCCGCuaGU--------------CAGCAGCG--CUa------UGCG- -5'
12197 5' -54.7 NC_003309.1 + 1250 0.66 0.74931
Target:  5'- gCGCGGCGcu--GUCGugcUCGUGAUACu- -3'
miRNA:   3'- -GCGCCGCuaguCAGC---AGCGCUAUGcg -5'
12197 5' -54.7 NC_003309.1 + 40485 0.66 0.748282
Target:  5'- cCGCGGCGAgggagcCAGaggacgccggaguUgGUCGCGA--CGCa -3'
miRNA:   3'- -GCGCCGCUa-----GUC-------------AgCAGCGCUauGCG- -5'
12197 5' -54.7 NC_003309.1 + 1049 0.67 0.728534
Target:  5'- aCGCcuGCuuuUCGGUCGUCGCGcc-CGCa -3'
miRNA:   3'- -GCGc-CGcu-AGUCAGCAGCGCuauGCG- -5'
12197 5' -54.7 NC_003309.1 + 6073 0.67 0.728534
Target:  5'- aCGCGGgcCGA--AGUCGUucuuUGCGAUcACGCg -3'
miRNA:   3'- -GCGCC--GCUagUCAGCA----GCGCUA-UGCG- -5'
12197 5' -54.7 NC_003309.1 + 5606 0.67 0.727484
Target:  5'- uCGgGGUGuUCGccgugccGUCGUCGCGAaugaACGCc -3'
miRNA:   3'- -GCgCCGCuAGU-------CAGCAGCGCUa---UGCG- -5'
12197 5' -54.7 NC_003309.1 + 44181 0.67 0.717999
Target:  5'- cCGCGGCGcgCuGcCGcUCGgCG-UACGCg -3'
miRNA:   3'- -GCGCCGCuaGuCaGC-AGC-GCuAUGCG- -5'
12197 5' -54.7 NC_003309.1 + 17517 0.67 0.70738
Target:  5'- -aCGGCGcGUCGGaCGUCaGCGGcACGCc -3'
miRNA:   3'- gcGCCGC-UAGUCaGCAG-CGCUaUGCG- -5'
12197 5' -54.7 NC_003309.1 + 19915 0.67 0.696688
Target:  5'- cCGCGGCGcUCAGcagguucgagcUCGaUCGCuGcUGCGCc -3'
miRNA:   3'- -GCGCCGCuAGUC-----------AGC-AGCG-CuAUGCG- -5'
12197 5' -54.7 NC_003309.1 + 5061 0.68 0.685936
Target:  5'- gCGCGGCGGcCGGU-GcCGCGAcgGCGg -3'
miRNA:   3'- -GCGCCGCUaGUCAgCaGCGCUa-UGCg -5'
12197 5' -54.7 NC_003309.1 + 19519 0.68 0.6708
Target:  5'- aCGCGaaauccgagaacuUGAUCGcGUCGUCGCGAUucgGCGUg -3'
miRNA:   3'- -GCGCc------------GCUAGU-CAGCAGCGCUA---UGCG- -5'
12197 5' -54.7 NC_003309.1 + 10668 0.68 0.66429
Target:  5'- uCGCGGgcgaUGAUCGccgCGUacggcaugccCGCGAUGCGCg -3'
miRNA:   3'- -GCGCC----GCUAGUca-GCA----------GCGCUAUGCG- -5'
12197 5' -54.7 NC_003309.1 + 45866 0.69 0.609834
Target:  5'- aCGCGGCGA-CGGcCGUCGaucacgaGGUucuCGCc -3'
miRNA:   3'- -GCGCCGCUaGUCaGCAGCg------CUAu--GCG- -5'
12197 5' -54.7 NC_003309.1 + 9397 0.7 0.534599
Target:  5'- uGCGGCGGucguauUCGGUCGuauUCGCcGUaACGCu -3'
miRNA:   3'- gCGCCGCU------AGUCAGC---AGCGcUA-UGCG- -5'
12197 5' -54.7 NC_003309.1 + 16024 0.7 0.534599
Target:  5'- cCGCGGCGGcgUAGUCaUCG-GAUGCGa -3'
miRNA:   3'- -GCGCCGCUa-GUCAGcAGCgCUAUGCg -5'
12197 5' -54.7 NC_003309.1 + 41376 0.71 0.472845
Target:  5'- aGCGGCGGgcaAGcCG-CGUGGUugGCu -3'
miRNA:   3'- gCGCCGCUag-UCaGCaGCGCUAugCG- -5'
12197 5' -54.7 NC_003309.1 + 47940 0.74 0.320816
Target:  5'- aGCuGCGAccgauaguUCGGUCGUCGCGc-ACGCg -3'
miRNA:   3'- gCGcCGCU--------AGUCAGCAGCGCuaUGCG- -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.