miRNA display CGI


Results 1 - 20 of 54 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
10705 3' -59.5 NC_002794.1 + 8119 0.67 0.750105
Target:  5'- -aGCGGGCGGCggccuccucggugaCCGGCgacggcaCCGCUUCUc -3'
miRNA:   3'- caCGCCUGUCG--------------GGCUGa------GGCGAAGGu -5'
10705 3' -59.5 NC_002794.1 + 12006 0.66 0.812417
Target:  5'- uGUGUGGACugaugugcgccgccGGCCCgGGCgUCCGCgccuUCCc -3'
miRNA:   3'- -CACGCCUG--------------UCGGG-CUG-AGGCGa---AGGu -5'
10705 3' -59.5 NC_002794.1 + 12728 0.66 0.789121
Target:  5'- -cGCGGcgacgAgGGCCCGG-UCCGCUaCCAg -3'
miRNA:   3'- caCGCC-----UgUCGGGCUgAGGCGAaGGU- -5'
10705 3' -59.5 NC_002794.1 + 16291 0.7 0.558233
Target:  5'- -gGCGGAgucUAGCCUGGCggCCGCggCCGg -3'
miRNA:   3'- caCGCCU---GUCGGGCUGa-GGCGaaGGU- -5'
10705 3' -59.5 NC_002794.1 + 24206 0.66 0.789121
Target:  5'- -aGCGcGGCGGCCCG-CUcacCCGUgUCCGu -3'
miRNA:   3'- caCGC-CUGUCGGGCuGA---GGCGaAGGU- -5'
10705 3' -59.5 NC_002794.1 + 34099 0.71 0.538949
Target:  5'- -cGuCGGGCGGCCCGGa-CCGCgacgUCCGc -3'
miRNA:   3'- caC-GCCUGUCGGGCUgaGGCGa---AGGU- -5'
10705 3' -59.5 NC_002794.1 + 40128 0.68 0.703503
Target:  5'- -aGCGGAgAGCCaCGGgcuCUCCGCggcuucugcgcgUCCAg -3'
miRNA:   3'- caCGCCUgUCGG-GCU---GAGGCGa-----------AGGU- -5'
10705 3' -59.5 NC_002794.1 + 40611 0.7 0.597325
Target:  5'- -cGCcGGC-GUCCGACUCCGCggagUCCGc -3'
miRNA:   3'- caCGcCUGuCGGGCUGAGGCGa---AGGU- -5'
10705 3' -59.5 NC_002794.1 + 42430 0.66 0.797869
Target:  5'- cGUGCGGuugaACucgucGCCCu-CUCCGCgUUCCAu -3'
miRNA:   3'- -CACGCC----UGu----CGGGcuGAGGCG-AAGGU- -5'
10705 3' -59.5 NC_002794.1 + 44509 0.66 0.797001
Target:  5'- -gGCGGcCcagaccgGGCCCGugUCCGCgagcgcgCCGu -3'
miRNA:   3'- caCGCCuG-------UCGGGCugAGGCGaa-----GGU- -5'
10705 3' -59.5 NC_002794.1 + 45001 0.69 0.640746
Target:  5'- cGUGCGGACcuguugcagacucguGGCCgGguGCUCCGCacCCAg -3'
miRNA:   3'- -CACGCCUG---------------UCGGgC--UGAGGCGaaGGU- -5'
10705 3' -59.5 NC_002794.1 + 45464 0.7 0.558233
Target:  5'- -aGCGGGCccagggucccgAGCUCGGcCUCCGCcgUCCAc -3'
miRNA:   3'- caCGCCUG-----------UCGGGCU-GAGGCGa-AGGU- -5'
10705 3' -59.5 NC_002794.1 + 46243 0.67 0.73415
Target:  5'- -cGCcGGCGGCUCG--UCCGCUUCCu -3'
miRNA:   3'- caCGcCUGUCGGGCugAGGCGAAGGu -5'
10705 3' -59.5 NC_002794.1 + 47324 0.7 0.577706
Target:  5'- -gGUGGGguGCCCGGCUCCcgcggcggcgGCcUCCGg -3'
miRNA:   3'- caCGCCUguCGGGCUGAGG----------CGaAGGU- -5'
10705 3' -59.5 NC_002794.1 + 48255 0.7 0.576729
Target:  5'- -aGCaGGAuCAGCCCGcagcacaggcaggGCUCCGCcgUCCGa -3'
miRNA:   3'- caCG-CCU-GUCGGGC-------------UGAGGCGa-AGGU- -5'
10705 3' -59.5 NC_002794.1 + 58080 0.69 0.656537
Target:  5'- -gGaCGGGCGGCCCGGCgcCCGCgcucgaCCGc -3'
miRNA:   3'- caC-GCCUGUCGGGCUGa-GGCGaa----GGU- -5'
10705 3' -59.5 NC_002794.1 + 58133 0.67 0.780242
Target:  5'- --cUGGGCGGCCUGGC-CCGCcgCCu -3'
miRNA:   3'- cacGCCUGUCGGGCUGaGGCGaaGGu -5'
10705 3' -59.5 NC_002794.1 + 59312 0.66 0.823246
Target:  5'- -aGCGccacGGCGcGCCCGACUUCGCcgCCc -3'
miRNA:   3'- caCGC----CUGU-CGGGCUGAGGCGaaGGu -5'
10705 3' -59.5 NC_002794.1 + 62503 0.66 0.806478
Target:  5'- -gGCGGGCGGCgCCGccggcgcCUCCGCccaCCGu -3'
miRNA:   3'- caCGCCUGUCG-GGCu------GAGGCGaa-GGU- -5'
10705 3' -59.5 NC_002794.1 + 67892 0.68 0.715077
Target:  5'- -aGCGGACucccccucGCCCGuCUCgGCUcCCGg -3'
miRNA:   3'- caCGCCUGu-------CGGGCuGAGgCGAaGGU- -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.