Locus 3910

Sequence ID X_DroMel_CAF1
Location 10,460,295 – 10,460,389
Length 94
Max. P 0.994235
window6414 window6415

overview

Window 4

Location 10,460,295 – 10,460,389
Length 94
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 94.53
Mean single sequence MFE -37.33
Consensus MFE -35.09
Energy contribution -35.40
Covariance contribution 0.31
Combinations/Pair 1.04
Mean z-score -3.21
Structure conservation index 0.94
SVM decision value 2.46
SVM RNA-class probability 0.994235
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10460295 94 + 22224390
GGCAAUGUGGGGCAA-GGGAGGAAAAUUCGCGACGCAUUCACGUUGCAAGGAUACGAAGGAACCUCCCAAGCACUUGUGUGUGCGUGCAACCCAC
......((((((((.-((((((....(((((((((......))))))..(....))))....))))))..((((......)))).)))..))))) ( -37.90)
>DroSec_CAF1 4775 94 + 1
GGCAAUGUGGGGCAA-GGGAGGAAAAUUCGCGACGCAUUCACGUUGCAAGGAUACGAAGGAAACUCCCAAGCACUUGUGUGUGCGUGCAACCCAC
......((((((((.-(((((.....(((((((((......))))))..(....)))).....)))))..((((......)))).)))..))))) ( -35.50)
>DroSim_CAF1 4543 94 + 1
GGCAAUGUGGGGCAA-GGGAGGAAAAUUCGCGACGCAUUCACGUUGCAAGGAUACGAAGGAAACUCCCAAGCACUUGUGUGUGCGUGCAACCCAC
......((((((((.-(((((.....(((((((((......))))))..(....)))).....)))))..((((......)))).)))..))))) ( -35.50)
>DroYak_CAF1 4713 90 + 1
G-----GUGGGGCAAUGGGAGGUAAAUUCGCGGCGCAUUCACGUUGCAAGGAUACGAAGGAACCUCCCAAGCACUUGUGAGUGCGUGCAACCCAC
.-----((((((((.((((((((...(((((((((......))))))..(....))))...)))))))).(((((....))))).)))..))))) ( -40.40)
>consensus
GGCAAUGUGGGGCAA_GGGAGGAAAAUUCGCGACGCAUUCACGUUGCAAGGAUACGAAGGAAACUCCCAAGCACUUGUGUGUGCGUGCAACCCAC
......((((((((..((((((....(((((((((......))))))..(....))))....))))))..((((......)))).)))..))))) (-35.09 = -35.40 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 10,460,295 – 10,460,389
Length 94
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 94.53
Mean single sequence MFE -33.20
Consensus MFE -30.50
Energy contribution -31.00
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.69
Structure conservation index 0.92
SVM decision value 2.04
SVM RNA-class probability 0.986520
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10460295 94 - 22224390
GUGGGUUGCACGCACACACAAGUGCUUGGGAGGUUCCUUCGUAUCCUUGCAACGUGAAUGCGUCGCGAAUUUUCCUCCC-UUGCCCCACAUUGCC
(((((..(((.((((......))))..((((((....(((((.....((((.......))))..)))))....))))))-.))))))))...... ( -34.60)
>DroSec_CAF1 4775 94 - 1
GUGGGUUGCACGCACACACAAGUGCUUGGGAGUUUCCUUCGUAUCCUUGCAACGUGAAUGCGUCGCGAAUUUUCCUCCC-UUGCCCCACAUUGCC
(((((..(((.((((......))))..(((((........(((....)))..(((((.....))))).......)))))-.))))))))...... ( -30.80)
>DroSim_CAF1 4543 94 - 1
GUGGGUUGCACGCACACACAAGUGCUUGGGAGUUUCCUUCGUAUCCUUGCAACGUGAAUGCGUCGCGAAUUUUCCUCCC-UUGCCCCACAUUGCC
(((((..(((.((((......))))..(((((........(((....)))..(((((.....))))).......)))))-.))))))))...... ( -30.80)
>DroYak_CAF1 4713 90 - 1
GUGGGUUGCACGCACUCACAAGUGCUUGGGAGGUUCCUUCGUAUCCUUGCAACGUGAAUGCGCCGCGAAUUUACCUCCCAUUGCCCCAC-----C
(((((..(((.(((((....))))).((((((((...(((((.....((((.......))))..)))))...)))))))).))))))))-----. ( -36.60)
>consensus
GUGGGUUGCACGCACACACAAGUGCUUGGGAGGUUCCUUCGUAUCCUUGCAACGUGAAUGCGUCGCGAAUUUUCCUCCC_UUGCCCCACAUUGCC
(((((..(((.((((......))))..((((((....(((((.....((((.......))))..)))))....))))))..))))))))...... (-30.50 = -31.00 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:29 2006