miRNA display CGI


Results 1 - 19 of 19 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
17761 3' -41.9 NC_004629.1 + 97508 0.69 1
Target:  5'- --aUGAUAagUGACGACAUAUcgacggGGCUCg -3'
miRNA:   3'- cuaACUAUa-AUUGCUGUAUA------UCGGGa -5'
17761 3' -41.9 NC_004629.1 + 158374 0.7 1
Target:  5'- uGAUUGGU----ACGACAUAauGCCCUc -3'
miRNA:   3'- -CUAACUAuaauUGCUGUAUauCGGGA- -5'
17761 3' -41.9 NC_004629.1 + 185200 0.69 1
Target:  5'- aAUUGAUAUUGGCGcaauugagguaACAUAUAcCCCa -3'
miRNA:   3'- cUAACUAUAAUUGC-----------UGUAUAUcGGGa -5'
17761 3' -41.9 NC_004629.1 + 140023 0.67 1
Target:  5'- -cUUGAUcgUAAUGGCAaAUAGCUa- -3'
miRNA:   3'- cuAACUAuaAUUGCUGUaUAUCGGga -5'
17761 3' -41.9 NC_004629.1 + 154919 0.67 1
Target:  5'- ---aGAUGUUGGCGuuAUAU-GCCCc -3'
miRNA:   3'- cuaaCUAUAAUUGCugUAUAuCGGGa -5'
17761 3' -41.9 NC_004629.1 + 116147 0.67 1
Target:  5'- ---gGAUAUUAACaACAUAaAGCUCUc -3'
miRNA:   3'- cuaaCUAUAAUUGcUGUAUaUCGGGA- -5'
17761 3' -41.9 NC_004629.1 + 138425 0.66 1
Target:  5'- cGAUUuAUAUUGAUGACAUuacucUGGCCa- -3'
miRNA:   3'- -CUAAcUAUAAUUGCUGUAu----AUCGGga -5'
17761 3' -41.9 NC_004629.1 + 133257 0.66 1
Target:  5'- ---aGAUgGUUAACGuCAUA-AGCCCUc -3'
miRNA:   3'- cuaaCUA-UAAUUGCuGUAUaUCGGGA- -5'
17761 3' -41.9 NC_004629.1 + 258376 0.66 1
Target:  5'- ---cGAUAU--AUGACAUAUGGCUa- -3'
miRNA:   3'- cuaaCUAUAauUGCUGUAUAUCGGga -5'
17761 3' -41.9 NC_004629.1 + 152763 0.68 1
Target:  5'- --cUGuUAUUuaaAACGACAUAUuGCCCUc -3'
miRNA:   3'- cuaACuAUAA---UUGCUGUAUAuCGGGA- -5'
17761 3' -41.9 NC_004629.1 + 236986 0.68 1
Target:  5'- ---cGAUAaUAAgaGCAUAUGGCCCUc -3'
miRNA:   3'- cuaaCUAUaAUUgcUGUAUAUCGGGA- -5'
17761 3' -41.9 NC_004629.1 + 34861 0.68 1
Target:  5'- ---aGAUAUuaucuUAAUGGCAUA-AGCCCUc -3'
miRNA:   3'- cuaaCUAUA-----AUUGCUGUAUaUCGGGA- -5'
17761 3' -41.9 NC_004629.1 + 214443 0.67 1
Target:  5'- aGAUUGcUAUUcACGG--UAUAGCCCa -3'
miRNA:   3'- -CUAACuAUAAuUGCUguAUAUCGGGa -5'
17761 3' -41.9 NC_004629.1 + 153256 0.66 1
Target:  5'- --cUGGUGUUAAUu-CAUAUGGCCa- -3'
miRNA:   3'- cuaACUAUAAUUGcuGUAUAUCGGga -5'
17761 3' -41.9 NC_004629.1 + 166080 0.66 1
Target:  5'- --aUGGUGUc--CGAUAUGcUAGCCCg -3'
miRNA:   3'- cuaACUAUAauuGCUGUAU-AUCGGGa -5'
17761 3' -41.9 NC_004629.1 + 208308 0.72 0.999998
Target:  5'- --aUGAUAaacuuguaaaaguUUAACGGCAUA-AGCCCUc -3'
miRNA:   3'- cuaACUAU-------------AAUUGCUGUAUaUCGGGA- -5'
17761 3' -41.9 NC_004629.1 + 12478 0.81 0.982441
Target:  5'- -------cUUGACGACAUAUAGCCCUc -3'
miRNA:   3'- cuaacuauAAUUGCUGUAUAUCGGGA- -5'
17761 3' -41.9 NC_004629.1 + 114491 0.81 0.982441
Target:  5'- uGUUGAgUAUUuuuuacucAACGGCAUAUAGCCCUa -3'
miRNA:   3'- cUAACU-AUAA--------UUGCUGUAUAUCGGGA- -5'
17761 3' -41.9 NC_004629.1 + 173950 1.1 0.10865
Target:  5'- cGAUUGAUAUUAACGACAUAUAGCCCUc -3'
miRNA:   3'- -CUAACUAUAAUUGCUGUAUAUCGGGA- -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.