miRNA display CGI


Results 1 - 20 of 20 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
12239 3' -57.1 NC_003309.1 + 6370 0.66 0.62589
Target:  5'- cGCGuuaCCcCUUCGCCGCGgUgGGCUUg- -3'
miRNA:   3'- -UGC---GGaGAAGCGGCGCgAgCUGAAgu -5'
12239 3' -57.1 NC_003309.1 + 37296 0.66 0.62589
Target:  5'- gACGCC-CUgaaucUCGCCgGCGCgUCGAUggCGg -3'
miRNA:   3'- -UGCGGaGA-----AGCGG-CGCG-AGCUGaaGU- -5'
12239 3' -57.1 NC_003309.1 + 3459 0.66 0.614971
Target:  5'- cGCGCgUCUUCGCCugcucaugcCGCUUGACc--- -3'
miRNA:   3'- -UGCGgAGAAGCGGc--------GCGAGCUGaagu -5'
12239 3' -57.1 NC_003309.1 + 8918 0.66 0.582337
Target:  5'- aACGCCUCcgCGaCCGCGgUCG-CaUCGu -3'
miRNA:   3'- -UGCGGAGaaGC-GGCGCgAGCuGaAGU- -5'
12239 3' -57.1 NC_003309.1 + 44186 0.66 0.571529
Target:  5'- gACGCCcgCggcgCGCUGcCGCUCGGCg--- -3'
miRNA:   3'- -UGCGGa-Gaa--GCGGC-GCGAGCUGaagu -5'
12239 3' -57.1 NC_003309.1 + 10578 0.67 0.550067
Target:  5'- uGCGCUUgCgcCGCCGC-CUCGACggCAc -3'
miRNA:   3'- -UGCGGA-GaaGCGGCGcGAGCUGaaGU- -5'
12239 3' -57.1 NC_003309.1 + 46247 0.67 0.539429
Target:  5'- aACGCCUgaacCUUCGCgCGuUGCUCGucgggcgacaGCUUCGc -3'
miRNA:   3'- -UGCGGA----GAAGCG-GC-GCGAGC----------UGAAGU- -5'
12239 3' -57.1 NC_003309.1 + 12606 0.67 0.528861
Target:  5'- cCGCCUCggcCGUguugaUGCGCUCGAUcUCGg -3'
miRNA:   3'- uGCGGAGaa-GCG-----GCGCGAGCUGaAGU- -5'
12239 3' -57.1 NC_003309.1 + 11226 0.67 0.528861
Target:  5'- uGCGCgUCgUCuGCCGCGCgCGACg--- -3'
miRNA:   3'- -UGCGgAGaAG-CGGCGCGaGCUGaagu -5'
12239 3' -57.1 NC_003309.1 + 10372 0.67 0.528861
Target:  5'- aGCGCCgccugCGCCGC-CUCGugUUg- -3'
miRNA:   3'- -UGCGGagaa-GCGGCGcGAGCugAAgu -5'
12239 3' -57.1 NC_003309.1 + 7347 0.67 0.528861
Target:  5'- cGCGCCUaagcgcCUUCGCCGa-CUgCGAUUUCGc -3'
miRNA:   3'- -UGCGGA------GAAGCGGCgcGA-GCUGAAGU- -5'
12239 3' -57.1 NC_003309.1 + 6335 0.68 0.497646
Target:  5'- uCGCC-CUUCGCCGaCGCuuUCGcaccCUUCAc -3'
miRNA:   3'- uGCGGaGAAGCGGC-GCG--AGCu---GAAGU- -5'
12239 3' -57.1 NC_003309.1 + 9321 0.68 0.487423
Target:  5'- uCGCCUaCUUCGCCauGCGCaucagggCGGCUUgAa -3'
miRNA:   3'- uGCGGA-GAAGCGG--CGCGa------GCUGAAgU- -5'
12239 3' -57.1 NC_003309.1 + 47607 0.69 0.437904
Target:  5'- cUGCCcggUCgUCGCCGCGCcgucCGGCUUUAc -3'
miRNA:   3'- uGCGG---AGaAGCGGCGCGa---GCUGAAGU- -5'
12239 3' -57.1 NC_003309.1 + 42775 0.69 0.409613
Target:  5'- gGCGCUUCUugcagUCGuuGaCGCUCuACUUCGg -3'
miRNA:   3'- -UGCGGAGA-----AGCggC-GCGAGcUGAAGU- -5'
12239 3' -57.1 NC_003309.1 + 5574 0.7 0.356585
Target:  5'- aACGCCuugUCUUCGCgCGCGC-CGAUcgCGg -3'
miRNA:   3'- -UGCGG---AGAAGCG-GCGCGaGCUGaaGU- -5'
12239 3' -57.1 NC_003309.1 + 14153 0.71 0.328751
Target:  5'- gACGaCCUCgucccacaucaucUUGCCGCGCUCGGCg--- -3'
miRNA:   3'- -UGC-GGAGa------------AGCGGCGCGAGCUGaagu -5'
12239 3' -57.1 NC_003309.1 + 5201 0.71 0.323223
Target:  5'- cGCGaCUUCUUCgccgaaGCCGCGCUCGAUcgccaguUUCGa -3'
miRNA:   3'- -UGC-GGAGAAG------CGGCGCGAGCUG-------AAGU- -5'
12239 3' -57.1 NC_003309.1 + 10935 0.74 0.216099
Target:  5'- uGCGCCg--UCGCCGCGCUuucagucgcCGuCUUCAg -3'
miRNA:   3'- -UGCGGagaAGCGGCGCGA---------GCuGAAGU- -5'
12239 3' -57.1 NC_003309.1 + 53256 0.74 0.194427
Target:  5'- cGCGCCgUCUUCGCCGCGU--GACagUCAc -3'
miRNA:   3'- -UGCGG-AGAAGCGGCGCGagCUGa-AGU- -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.