Locus 7429

Sequence ID X_DroMel_CAF1
Location 18,538,628 – 18,538,771
Length 143
Max. P 0.996353
window12181 window12182

overview

Window 1

Location 18,538,628 – 18,538,731
Length 103
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 96.73
Mean single sequence MFE -19.67
Consensus MFE -19.29
Energy contribution -19.07
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -2.15
Structure conservation index 0.98
SVM decision value 1.25
SVM RNA-class probability 0.935817
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18538628 103 + 22224390
AAGAAAAUAAAAUACAAUUAAAUAAUGUUGAAAAAAAAAAGUCGGCAUCACAAUCGAAAUCUGGUCAAGGUCGCACUGCCUUCAAGCAGCCCUAUGUGACCAC
........................(((((((..........)))))))....................(((((((((((......)))).....))))))).. ( -18.20)
>DroSec_CAF1 3559 100 + 1
AAGAAAAUAAAAUACAAUUAAAUAAUGUCGAAA---AAAAGUCGGCAACACAAUCGAAAUCUGGUCAAGGUCGCACUGCCUUCAAGCAGCCCUAUGUGACCAC
.........................((((((..---.....)))))).....................(((((((((((......)))).....))))))).. ( -20.40)
>DroSim_CAF1 3607 100 + 1
AAGAAAAUAAAAUACAAUUAAAUAAUGUCGAAA---AAAAGUCGGCAACACAAUCGAAAUCUGGUCAAGGUCGCACUGCCUUCAAGCAGCCCUAUGUGACCAC
.........................((((((..---.....)))))).....................(((((((((((......)))).....))))))).. ( -20.40)
>consensus
AAGAAAAUAAAAUACAAUUAAAUAAUGUCGAAA___AAAAGUCGGCAACACAAUCGAAAUCUGGUCAAGGUCGCACUGCCUUCAAGCAGCCCUAUGUGACCAC
.........................((((((..........)))))).....................(((((((((((......)))).....))))))).. (-19.29 = -19.07 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 18,538,651 – 18,538,771
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.19
Mean single sequence MFE -26.93
Consensus MFE -26.09
Energy contribution -25.87
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.74
Structure conservation index 0.97
SVM decision value 2.69
SVM RNA-class probability 0.996353
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18538651 120 + 22224390
AAUGUUGAAAAAAAAAAGUCGGCAUCACAAUCGAAAUCUGGUCAAGGUCGCACUGCCUUCAAGCAGCCCUAUGUGACCACCAGACACCCAAUUACAGAUACAGAUACAGAUACAGAUACA
.(((((((..........)))))))...........((((((...(((((((((((......)))).....))))))))))))).................................... ( -25.00)
>DroSec_CAF1 3582 97 + 1
AAUGUCGAAA---AAAAGUCGGCAACACAAUCGAAAUCUGGUCAAGGUCGCACUGCCUUCAAGCAGCCCUAUGUGACCACCAGACACCCAAUUACAGGUA--------------------
..((((((..---.....))))))............((((((...(((((((((((......)))).....))))))))))))).(((........))).-------------------- ( -28.60)
>DroSim_CAF1 3630 111 + 1
AAUGUCGAAA---AAAAGUCGGCAACACAAUCGAAAUCUGGUCAAGGUCGCACUGCCUUCAAGCAGCCCUAUGUGACCACCAGACACCCAAUUACAGAUACAGAUACA------GAUACA
..((((((..---.....))))))............((((((...(((((((((((......)))).....)))))))))))))........................------...... ( -27.20)
>consensus
AAUGUCGAAA___AAAAGUCGGCAACACAAUCGAAAUCUGGUCAAGGUCGCACUGCCUUCAAGCAGCCCUAUGUGACCACCAGACACCCAAUUACAGAUACAGAUACA______GAUACA
..((((((..........))))))............((((((...(((((((((((......)))).....))))))))))))).................................... (-26.09 = -25.87 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:41 2006