miRNA display CGI


Results 1 - 20 of 34 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
11580 5' -63.1 NC_003085.1 + 48540 0.66 0.299329
Target:  5'- cGGGCCUUCCAGUccucCUCUcCCGaGCGGGu -3'
miRNA:   3'- -UCCGGGAGGUCGuc--GGGA-GGC-CGUUC- -5'
11580 5' -63.1 NC_003085.1 + 34310 0.66 0.292159
Target:  5'- aGGGCCCUgccCCGGUGGCCauuacgCCGuaGGGa -3'
miRNA:   3'- -UCCGGGA---GGUCGUCGGga----GGCcgUUC- -5'
11580 5' -63.1 NC_003085.1 + 652 0.66 0.292159
Target:  5'- gAGGCgCUCgAGCAccGCCCggacgucgCCGGCc-- -3'
miRNA:   3'- -UCCGgGAGgUCGU--CGGGa-------GGCCGuuc -5'
11580 5' -63.1 NC_003085.1 + 41333 0.66 0.285124
Target:  5'- uGGCCCgCCAGUccAGCCUgCCGcGCGu- -3'
miRNA:   3'- uCCGGGaGGUCG--UCGGGaGGC-CGUuc -5'
11580 5' -63.1 NC_003085.1 + 41762 0.66 0.285124
Target:  5'- -cGCCCggCCAGCcuggaAGCCCagCCGGUAc- -3'
miRNA:   3'- ucCGGGa-GGUCG-----UCGGGa-GGCCGUuc -5'
11580 5' -63.1 NC_003085.1 + 41001 0.66 0.278224
Target:  5'- gAGGCaCCUCuCGGCgcgcggcgAGCUCgUCaCGGCAGGu -3'
miRNA:   3'- -UCCG-GGAG-GUCG--------UCGGG-AG-GCCGUUC- -5'
11580 5' -63.1 NC_003085.1 + 11987 0.66 0.27618
Target:  5'- uGGUCCUCuuggccugcggcagCAGCGGCCUgacgCUGGCGc- -3'
miRNA:   3'- uCCGGGAG--------------GUCGUCGGGa---GGCCGUuc -5'
11580 5' -63.1 NC_003085.1 + 12447 0.66 0.271458
Target:  5'- cGGCCCuUCCAGCGuuGUUCUC-GGCAc- -3'
miRNA:   3'- uCCGGG-AGGUCGU--CGGGAGgCCGUuc -5'
11580 5' -63.1 NC_003085.1 + 10177 0.66 0.271458
Target:  5'- cAGGUCCaucaaCGGCGGuUCCgacgCCGGCGGGg -3'
miRNA:   3'- -UCCGGGag---GUCGUC-GGGa---GGCCGUUC- -5'
11580 5' -63.1 NC_003085.1 + 30320 0.66 0.271458
Target:  5'- uGGCCaC-CCAGCGGgCC-CUGGCGGa -3'
miRNA:   3'- uCCGG-GaGGUCGUCgGGaGGCCGUUc -5'
11580 5' -63.1 NC_003085.1 + 32516 0.66 0.269454
Target:  5'- gAGGCCg-CgGGCGuucgguccaacgacGCCCUCCuuGGCGAGg -3'
miRNA:   3'- -UCCGGgaGgUCGU--------------CGGGAGG--CCGUUC- -5'
11580 5' -63.1 NC_003085.1 + 37195 0.66 0.268788
Target:  5'- cGGCCaguuucacggcgCCAGCGGCCUucaauUCUGGCGGc -3'
miRNA:   3'- uCCGGga----------GGUCGUCGGG-----AGGCCGUUc -5'
11580 5' -63.1 NC_003085.1 + 26228 0.66 0.262208
Target:  5'- cGGGUCCgcgacgucgguggCCAGCAGCCCgaguuccaCGGCc-- -3'
miRNA:   3'- -UCCGGGa------------GGUCGUCGGGag------GCCGuuc -5'
11580 5' -63.1 NC_003085.1 + 19678 0.67 0.258322
Target:  5'- cGGCgaCCUCCuGGCGGCCCUggaGGCGc- -3'
miRNA:   3'- uCCG--GGAGG-UCGUCGGGAgg-CCGUuc -5'
11580 5' -63.1 NC_003085.1 + 23635 0.67 0.239599
Target:  5'- aAGGUgCUUCAGCAGCgCgagcaggCCGcGCAGGc -3'
miRNA:   3'- -UCCGgGAGGUCGUCGgGa------GGC-CGUUC- -5'
11580 5' -63.1 NC_003085.1 + 15113 0.67 0.233615
Target:  5'- uGGCCCUgggcugcggcuUgGGcCGGCCCagCGGCAAGu -3'
miRNA:   3'- uCCGGGA-----------GgUC-GUCGGGagGCCGUUC- -5'
11580 5' -63.1 NC_003085.1 + 539 0.67 0.222023
Target:  5'- uGGGCaCCUgcaacagcgCCGGCuGGCCCUCCGcGCc-- -3'
miRNA:   3'- -UCCG-GGA---------GGUCG-UCGGGAGGC-CGuuc -5'
11580 5' -63.1 NC_003085.1 + 26455 0.67 0.222023
Target:  5'- uGGGCgCU-CAGCGGCCCgagcaaCGGCAu- -3'
miRNA:   3'- -UCCGgGAgGUCGUCGGGag----GCCGUuc -5'
11580 5' -63.1 NC_003085.1 + 19012 0.68 0.216413
Target:  5'- cGGGCCCguugguagCGGCaAGUCCUCUGGCu-- -3'
miRNA:   3'- -UCCGGGag------GUCG-UCGGGAGGCCGuuc -5'
11580 5' -63.1 NC_003085.1 + 18825 0.68 0.205557
Target:  5'- -cGCCCgcUCCAGCGGCggCUUCGGCAu- -3'
miRNA:   3'- ucCGGG--AGGUCGUCGg-GAGGCCGUuc -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.