miRNA display CGI


Results 1 - 20 of 29 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
13440 3' -56.5 NC_003409.1 + 18324 0.66 0.876032
Target:  5'- --gGUGGGgacuuguaccGGGA-GGCGCUCacuGGCCCc -3'
miRNA:   3'- cuaUACUC----------UCCUgCCGCGAGg--UCGGG- -5'
13440 3' -56.5 NC_003409.1 + 116405 0.66 0.876032
Target:  5'- -cUGUGAGGGGugGGCcaGgUCUAGgCg -3'
miRNA:   3'- cuAUACUCUCCugCCG--CgAGGUCgGg -5'
13440 3' -56.5 NC_003409.1 + 21644 0.66 0.868683
Target:  5'- ---uUGGGAGGugGG-GUaCCAGCUg -3'
miRNA:   3'- cuauACUCUCCugCCgCGaGGUCGGg -5'
13440 3' -56.5 NC_003409.1 + 39006 0.66 0.853346
Target:  5'- --gAUGAGAGcGAUGGC-CUgCAGUCUc -3'
miRNA:   3'- cuaUACUCUC-CUGCCGcGAgGUCGGG- -5'
13440 3' -56.5 NC_003409.1 + 3003 0.66 0.851766
Target:  5'- cGUGUGGGAaagcgacagaaggGGGCGGCGUUUCcauaugaGGCCa -3'
miRNA:   3'- cUAUACUCU-------------CCUGCCGCGAGG-------UCGGg -5'
13440 3' -56.5 NC_003409.1 + 25012 0.66 0.84537
Target:  5'- ----gGGGAGGGUGGCGCgCCGGgauCCCc -3'
miRNA:   3'- cuauaCUCUCCUGCCGCGaGGUC---GGG- -5'
13440 3' -56.5 NC_003409.1 + 24982 0.66 0.84537
Target:  5'- ----gGGGAGGGUGGCGCgCCGGgauCCCc -3'
miRNA:   3'- cuauaCUCUCCUGCCGCGaGGUC---GGG- -5'
13440 3' -56.5 NC_003409.1 + 24952 0.66 0.84537
Target:  5'- ----gGGGAGGGUGGCGCgCCGGgauCCCc -3'
miRNA:   3'- cuauaCUCUCCUGCCGCGaGGUC---GGG- -5'
13440 3' -56.5 NC_003409.1 + 24922 0.66 0.84537
Target:  5'- ----gGGGAGGGUGGCGCgCCGGgauCCCc -3'
miRNA:   3'- cuauaCUCUCCUGCCGCGaGGUC---GGG- -5'
13440 3' -56.5 NC_003409.1 + 24772 0.66 0.84537
Target:  5'- ----gGGGAGGGUGGCGCgCCGGgauCCCc -3'
miRNA:   3'- cuauaCUCUCCUGCCGCGaGGUC---GGG- -5'
13440 3' -56.5 NC_003409.1 + 24802 0.66 0.84537
Target:  5'- ----gGGGAGGGUGGCGCgCCGGgauCCCc -3'
miRNA:   3'- cuauaCUCUCCUGCCGCGaGGUC---GGG- -5'
13440 3' -56.5 NC_003409.1 + 24832 0.66 0.84537
Target:  5'- ----gGGGAGGGUGGCGCgCCGGgauCCCc -3'
miRNA:   3'- cuauaCUCUCCUGCCGCGaGGUC---GGG- -5'
13440 3' -56.5 NC_003409.1 + 24862 0.66 0.84537
Target:  5'- ----gGGGAGGGUGGCGCgCCGGgauCCCc -3'
miRNA:   3'- cuauaCUCUCCUGCCGCGaGGUC---GGG- -5'
13440 3' -56.5 NC_003409.1 + 24892 0.66 0.84537
Target:  5'- ----gGGGAGGGUGGCGCgCCGGgauCCCc -3'
miRNA:   3'- cuauaCUCUCCUGCCGCGaGGUC---GGG- -5'
13440 3' -56.5 NC_003409.1 + 31213 0.67 0.828839
Target:  5'- ----aGAgGAGGACGGCGgU--GGCCCu -3'
miRNA:   3'- cuauaCU-CUCCUGCCGCgAggUCGGG- -5'
13440 3' -56.5 NC_003409.1 + 109369 0.67 0.820298
Target:  5'- ----aGGGAGG-UGGCGCU--GGCCCc -3'
miRNA:   3'- cuauaCUCUCCuGCCGCGAggUCGGG- -5'
13440 3' -56.5 NC_003409.1 + 105049 0.67 0.80181
Target:  5'- uGAUGUGuGGGGGCuGGUGCUCgucugguggcuggUGGCCa -3'
miRNA:   3'- -CUAUACuCUCCUG-CCGCGAG-------------GUCGGg -5'
13440 3' -56.5 NC_003409.1 + 128592 0.67 0.793672
Target:  5'- ---uUGGGGGGugGGCGa-CCAGUugCCa -3'
miRNA:   3'- cuauACUCUCCugCCGCgaGGUCG--GG- -5'
13440 3' -56.5 NC_003409.1 + 41988 0.67 0.793672
Target:  5'- -uUGUGAGcgauGGcACGGCGCagcgagaCCAGCUCu -3'
miRNA:   3'- cuAUACUCu---CC-UGCCGCGa------GGUCGGG- -5'
13440 3' -56.5 NC_003409.1 + 88197 0.68 0.775171
Target:  5'- cGAUGgcgccuuAGGGGGagcaGGUGCUgCAGCCCc -3'
miRNA:   3'- -CUAUac-----UCUCCUg---CCGCGAgGUCGGG- -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.