miRNA display CGI


Results 1 - 20 of 100 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
16235 3' -52.9 NC_004065.1 + 229522 1.02 0.023547
Target:  5'- uAGACUCCCAGAAAACGGC-GUCCACCg -3'
miRNA:   3'- -UCUGAGGGUCUUUUGCCGaCAGGUGG- -5'
16235 3' -52.9 NC_004065.1 + 145884 0.76 0.658373
Target:  5'- uGGCUCCCGGAGAugGGagaaUGUgCGCg -3'
miRNA:   3'- uCUGAGGGUCUUUugCCg---ACAgGUGg -5'
16235 3' -52.9 NC_004065.1 + 64628 0.76 0.678572
Target:  5'- cGGACUUCCAGAAGGCcaucgaccGCgcGUCCGCCg -3'
miRNA:   3'- -UCUGAGGGUCUUUUGc-------CGa-CAGGUGG- -5'
16235 3' -52.9 NC_004065.1 + 140839 0.75 0.747625
Target:  5'- gAGACUCUCcgacaAGAAGACGGCccUGaaggCCGCCg -3'
miRNA:   3'- -UCUGAGGG-----UCUUUUGCCG--ACa---GGUGG- -5'
16235 3' -52.9 NC_004065.1 + 200102 0.75 0.747625
Target:  5'- cAGACUCaugacGAAGACGGCgucgGUCCGCUc -3'
miRNA:   3'- -UCUGAGggu--CUUUUGCCGa---CAGGUGG- -5'
16235 3' -52.9 NC_004065.1 + 122053 0.75 0.737988
Target:  5'- -aACUUCCAGGAcgggGACGGCUaccgcGUCUACCa -3'
miRNA:   3'- ucUGAGGGUCUU----UUGCCGA-----CAGGUGG- -5'
16235 3' -52.9 NC_004065.1 + 21790 0.74 0.775904
Target:  5'- cGGCUCCuCGGucaaagcGCGGCUGUUCACa -3'
miRNA:   3'- uCUGAGG-GUCuuu----UGCCGACAGGUGg -5'
16235 3' -52.9 NC_004065.1 + 223322 0.74 0.794138
Target:  5'- uAGACUCCgaaCGGu-AACGGCcacccGUCCACCa -3'
miRNA:   3'- -UCUGAGG---GUCuuUUGCCGa----CAGGUGG- -5'
16235 3' -52.9 NC_004065.1 + 54622 0.73 0.837065
Target:  5'- gAGACUCUCGuAGGACGGUgggggaucgucGUCCGCCu -3'
miRNA:   3'- -UCUGAGGGUcUUUUGCCGa----------CAGGUGG- -5'
16235 3' -52.9 NC_004065.1 + 81283 0.73 0.837065
Target:  5'- aGGACgCCCugucGGAGcuGCGGCUGUCCucgauCCg -3'
miRNA:   3'- -UCUGaGGGu---CUUU--UGCCGACAGGu----GG- -5'
16235 3' -52.9 NC_004065.1 + 37499 0.72 0.875426
Target:  5'- cGGAC-CCCu---GGCGGCUcUCCGCCa -3'
miRNA:   3'- -UCUGaGGGucuuUUGCCGAcAGGUGG- -5'
16235 3' -52.9 NC_004065.1 + 140068 0.72 0.882478
Target:  5'- cGGCUCCCAGAAAGCcguugaGGCgacgCGCCg -3'
miRNA:   3'- uCUGAGGGUCUUUUG------CCGacagGUGG- -5'
16235 3' -52.9 NC_004065.1 + 40142 0.72 0.860684
Target:  5'- cGA--UCCAGAcgGCGGCcucguUGUCCACCa -3'
miRNA:   3'- uCUgaGGGUCUuuUGCCG-----ACAGGUGG- -5'
16235 3' -52.9 NC_004065.1 + 54374 0.72 0.853005
Target:  5'- cAGACUCCgAccguGAUGGCgGUCCACUg -3'
miRNA:   3'- -UCUGAGGgUcuu-UUGCCGaCAGGUGG- -5'
16235 3' -52.9 NC_004065.1 + 120949 0.72 0.860684
Target:  5'- cGACaugggCCCGGAcAGCaGCUGuUCCGCCu -3'
miRNA:   3'- uCUGa----GGGUCUuUUGcCGAC-AGGUGG- -5'
16235 3' -52.9 NC_004065.1 + 36056 0.71 0.887285
Target:  5'- cGGCUCgcuCCAGAAGACGGgaaccccauugaaaCUG-CCACCu -3'
miRNA:   3'- uCUGAG---GGUCUUUUGCC--------------GACaGGUGG- -5'
16235 3' -52.9 NC_004065.1 + 197296 0.71 0.889312
Target:  5'- cGACUCCCAcAG--UGuGCUGUCCAUCu -3'
miRNA:   3'- uCUGAGGGUcUUuuGC-CGACAGGUGG- -5'
16235 3' -52.9 NC_004065.1 + 196963 0.71 0.914387
Target:  5'- -cGCUCCCAGAcacaAGGCGGC-GcCCGCa -3'
miRNA:   3'- ucUGAGGGUCU----UUUGCCGaCaGGUGg -5'
16235 3' -52.9 NC_004065.1 + 49690 0.71 0.902308
Target:  5'- cAGGCgUCCCuccuGAuGACGGCgGUCCucuCCa -3'
miRNA:   3'- -UCUG-AGGGu---CUuUUGCCGaCAGGu--GG- -5'
16235 3' -52.9 NC_004065.1 + 74655 0.71 0.889312
Target:  5'- uGAggUCCGGAccGCGGCgcGUCCGCCg -3'
miRNA:   3'- uCUgaGGGUCUuuUGCCGa-CAGGUGG- -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.