miRNA display CGI


Results 1 - 20 of 27 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
30597 3' -48 NC_006549.1 + 54185 1.12 0.010209
Target:  5'- cUAUCACACGCAAAGACCGUAACGACCg -3'
miRNA:   3'- -AUAGUGUGCGUUUCUGGCAUUGCUGG- -5'
30597 3' -48 NC_006549.1 + 73983 0.73 0.935624
Target:  5'- gAUCGCGCGCAAuGGAcagagacugcauuucCCGUAGCGAa- -3'
miRNA:   3'- aUAGUGUGCGUU-UCU---------------GGCAUUGCUgg -5'
30597 3' -48 NC_006549.1 + 3817 0.72 0.952661
Target:  5'- aUcgCGCACGUGAAcGCCGUGGCGAa- -3'
miRNA:   3'- -AuaGUGUGCGUUUcUGGCAUUGCUgg -5'
30597 3' -48 NC_006549.1 + 12650 0.72 0.960297
Target:  5'- -uUCAUGCGCAaucgucuccuacaGAGGCCGUAuauuCGugCg -3'
miRNA:   3'- auAGUGUGCGU-------------UUCUGGCAUu---GCugG- -5'
30597 3' -48 NC_006549.1 + 107077 0.7 0.988628
Target:  5'- -uUCGCAUGCGuAGACCuaAACGAUUg -3'
miRNA:   3'- auAGUGUGCGUuUCUGGcaUUGCUGG- -5'
30597 3' -48 NC_006549.1 + 11161 0.69 0.991337
Target:  5'- ---aGCGCGaCAGAGACCGagAAUGGCa -3'
miRNA:   3'- auagUGUGC-GUUUCUGGCa-UUGCUGg -5'
30597 3' -48 NC_006549.1 + 21694 0.69 0.993509
Target:  5'- aAUCuC-CGCAu-GACCGUAGCGuaACCg -3'
miRNA:   3'- aUAGuGuGCGUuuCUGGCAUUGC--UGG- -5'
30597 3' -48 NC_006549.1 + 64024 0.68 0.994418
Target:  5'- -uUUAguCGUGAGGGCCGUGGCGuACg -3'
miRNA:   3'- auAGUguGCGUUUCUGGCAUUGC-UGg -5'
30597 3' -48 NC_006549.1 + 53465 0.68 0.994418
Target:  5'- --aUACGCGCgAGAGACgaGcgGGCGGCCg -3'
miRNA:   3'- auaGUGUGCG-UUUCUGg-Ca-UUGCUGG- -5'
30597 3' -48 NC_006549.1 + 83508 0.68 0.995221
Target:  5'- -uUCGCGC-CGGaaccGGACC-UGACGGCCg -3'
miRNA:   3'- auAGUGUGcGUU----UCUGGcAUUGCUGG- -5'
30597 3' -48 NC_006549.1 + 31439 0.68 0.995928
Target:  5'- gAUCGCgaGCGCAucauGGccaauuuuGCCGUAGCGAUa -3'
miRNA:   3'- aUAGUG--UGCGUu---UC--------UGGCAUUGCUGg -5'
30597 3' -48 NC_006549.1 + 105113 0.68 0.995928
Target:  5'- uUGUCACACGCGGGGAUuaccuccaCG-AACGAa- -3'
miRNA:   3'- -AUAGUGUGCGUUUCUG--------GCaUUGCUgg -5'
30597 3' -48 NC_006549.1 + 44255 0.68 0.996488
Target:  5'- cGUCACGaGCAAaauuGGAcuguugauauguuCCGUGGCGAUCg -3'
miRNA:   3'- aUAGUGUgCGUU----UCU-------------GGCAUUGCUGG- -5'
30597 3' -48 NC_006549.1 + 65916 0.68 0.997035
Target:  5'- -cUCGCACGCGucgcccAAGGCCuuugcuucuuguuGUuuuACGGCCa -3'
miRNA:   3'- auAGUGUGCGU------UUCUGG-------------CAu--UGCUGG- -5'
30597 3' -48 NC_006549.1 + 97226 0.67 0.997553
Target:  5'- -cUCugGCGCcGAcaacagacuGGCCGUGAUGGCg -3'
miRNA:   3'- auAGugUGCGuUU---------CUGGCAUUGCUGg -5'
30597 3' -48 NC_006549.1 + 97317 0.67 0.998302
Target:  5'- -uUCGCGCaaGCAGAGA-CGgcGCuGACCg -3'
miRNA:   3'- auAGUGUG--CGUUUCUgGCauUG-CUGG- -5'
30597 3' -48 NC_006549.1 + 69557 0.67 0.998848
Target:  5'- cUAUCGaa-GaCGAGGACgGUAACGGCUc -3'
miRNA:   3'- -AUAGUgugC-GUUUCUGgCAUUGCUGG- -5'
30597 3' -48 NC_006549.1 + 41756 0.66 0.99922
Target:  5'- -cUgGCGCGCAAGGuCCGUcuggcaaGACugGACCc -3'
miRNA:   3'- auAgUGUGCGUUUCuGGCA-------UUG--CUGG- -5'
30597 3' -48 NC_006549.1 + 71587 0.66 0.999236
Target:  5'- uUGUCGC-UGUAAucuuCCGUGGCGAUCu -3'
miRNA:   3'- -AUAGUGuGCGUUucu-GGCAUUGCUGG- -5'
30597 3' -48 NC_006549.1 + 125757 0.66 0.999236
Target:  5'- -cUCGCAaucUGCGgccaGGGAuCCGaGACGACCg -3'
miRNA:   3'- auAGUGU---GCGU----UUCU-GGCaUUGCUGG- -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.