Locus 8543

Sequence ID	X_DroMel_CAF1
Location	21,161,237 – 21,161,397
Length	160
Max. P	0.898655

overview

Window 9

Location	21,161,237 – 21,161,357
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.33
Mean single sequence MFE	-36.62
Consensus MFE	-30.78
Energy contribution	-31.46
Covariance contribution	0.68
Combinations/Pair	1.06
Mean z-score	-1.66
Structure conservation index	0.84
SVM decision value	0.86
SVM RNA-class probability	0.867977
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21161237 120 + 22224390
CUCAGAAGUCGAAAGGAAUCUGGGAACUCCUGCGACUCCCCCGCGCAAUGGGCACCAUCUCAUCCGUGCUGCAGUGGUCGUGCACCAAAUGUAACACUAUCAAUCCCACGGAGUCGCUCA
((((((..((....))..)))))).......((((((((...((((.(((((......)))))..))))...((((....((((.....)))).))))...........))))))))... ( -40.20)
>DroSec_CAF1 5182 120 + 1
CUCACAAGUCGAAAGGAAUCUGGGAACUCCUGCGACUCCCCCGCGCAAUGGGCACCAUCUCAUCCGUGCUGCAGUGGUCGUGCACCAAGUGCAACACGAUCAAUCCCACGGAGUCGCUCA
((((....((....))....)))).......((((((((...((((.(((((......)))))..)))).....(((((((((((...))))...))))))).......))))))))... ( -40.20)
>DroSim_CAF1 5131 120 + 1
CUCACAAGUCGAAAGGAAUCUGGGAACUCCUGCGACUCCCCCGCGCAAUGGGCACCAUCUCAUCCGUGCUGCAGUGGUCGUGCACCAAGUGCAACACGAUCAAUCCCACGGAGUCGCUCA
((((....((....))....)))).......((((((((...((((.(((((......)))))..)))).....(((((((((((...))))...))))))).......))))))))... ( -40.20)
>DroEre_CAF1 5906 120 + 1
CUCACAACUCGAAACGAAUCUCGGAACUCCUGCGACUCCCCCGCGAAAUGGGCACCAUCUCAUCCGUGCUGCAGUGGUCGUGCACCAAGUGCAACACGAUCAAUCCCACGGAAUCGCUCA
..........((...((.((.(((.....))).)).))....((((..((((......))))((((((......(((((((((((...))))...)))))))....)))))).)))))). ( -30.90)
>DroYak_CAF1 5259 120 + 1
CUCACAACUCUAAACGAAUCUCGGAACUCCUGCGACUCCCCUGCACAAUGGGCACCAUCUCAUCCGUGCUGCAGUGGUCGUGCACCAAGUGCAACACGAUCAAUCCCACGGAAUCGCUCA
...............((.....((....)).((((.(((.(((((..(((((..........)))))..)))))(((((((((((...))))...))))))).......))).)))))). ( -31.60)
>consensus
CUCACAAGUCGAAAGGAAUCUGGGAACUCCUGCGACUCCCCCGCGCAAUGGGCACCAUCUCAUCCGUGCUGCAGUGGUCGUGCACCAAGUGCAACACGAUCAAUCCCACGGAGUCGCUCA
...............((.....((....)).((((((((...((((.(((((......)))))..)))).....(((((((((((...))))...))))))).......)))))))))). (-30.78 = -31.46 +   0.68)

alignment

secondary structure

dotplot

Window 0

Location	21,161,277 – 21,161,397
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.67
Mean single sequence MFE	-39.63
Consensus MFE	-37.40
Energy contribution	-37.24
Covariance contribution	-0.16
Combinations/Pair	1.09
Mean z-score	-1.37
Structure conservation index	0.94
SVM decision value	1.00
SVM RNA-class probability	0.898655
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21161277 120 + 22224390
CCGCGCAAUGGGCACCAUCUCAUCCGUGCUGCAGUGGUCGUGCACCAAAUGUAACACUAUCAAUCCCACGGAGUCGCUCAAGUGCUUCAAUUGCGGCACCGUCCGCAAGGUGUUCCCCCA
...((((((.(((((.......((((((.....(((((..((((.....))))..)))))......)))))).........)))))...))))))(((((........)))))....... ( -34.19)
>DroSec_CAF1 5222 120 + 1
CCGCGCAAUGGGCACCAUCUCAUCCGUGCUGCAGUGGUCGUGCACCAAGUGCAACACGAUCAAUCCCACGGAGUCGCUCAAGUGCUUCAAUUGCGGCACUGUCCGCAAGGUGUUCCCCCA
.........(((((((.........((((((((((((((((((((...))))...))))))........((((.(((....))))))).))))))))))((....)).)))))))..... ( -41.80)
>DroSim_CAF1 5171 120 + 1
CCGCGCAAUGGGCACCAUCUCAUCCGUGCUGCAGUGGUCGUGCACCAAGUGCAACACGAUCAAUCCCACGGAGUCGCUCAAGUGCUUCAAUUGCGGCACUGUCCGCAAGGUGUUCCCCCA
.........(((((((.........((((((((((((((((((((...))))...))))))........((((.(((....))))))).))))))))))((....)).)))))))..... ( -41.80)
>DroEre_CAF1 5946 120 + 1
CCGCGAAAUGGGCACCAUCUCAUCCGUGCUGCAGUGGUCGUGCACCAAGUGCAACACGAUCAAUCCCACGGAAUCGCUCAAGUGCUUCAACUGCGGCACCGUCCGCAAGGUGUUCCCCCA
.........(((((((.......(.((((((((((((((((((((...))))...)))))).........(((.(((....))).))).)))))))))).).......)))))))..... ( -41.04)
>DroYak_CAF1 5299 120 + 1
CUGCACAAUGGGCACCAUCUCAUCCGUGCUGCAGUGGUCGUGCACCAAGUGCAACACGAUCAAUCCCACGGAAUCGCUCAAGUGCUUCAAUUGCGGCACCGUCCGCAAGGUGUUCCCCCA
.........(((((((......((((((......(((((((((((...))))...)))))))....))))))...((......)).....((((((......)))))))))))))..... ( -39.30)
>consensus
CCGCGCAAUGGGCACCAUCUCAUCCGUGCUGCAGUGGUCGUGCACCAAGUGCAACACGAUCAAUCCCACGGAGUCGCUCAAGUGCUUCAAUUGCGGCACCGUCCGCAAGGUGUUCCCCCA
.........(((((((.......(.((((((((((((((((((((...))))...)))))).........(((.(((....))).))).)))))))))).).......)))))))..... (-37.40 = -37.24 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:56 2006