Locus 5245

Sequence ID	2R_DroMel_CAF1
Location	17,073,638 – 17,073,729
Length	91
Max. P	0.971381

overview

Window 7

Location	17,073,638 – 17,073,729
Length	91
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	89.31
Mean single sequence MFE	-23.28
Consensus MFE	-20.70
Energy contribution	-21.08
Covariance contribution	0.38
Combinations/Pair	1.09
Mean z-score	-1.81
Structure conservation index	0.89
SVM decision value	1.67
SVM RNA-class probability	0.971381
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17073638 91 + 20766785
UGU---ACUUUCCAGUAAUACGUUUUUUCCAGUGUCGAAGGAGAAGGCUAGCUGGGUGAGAGCGAGAGAGCUAGCGAAAAAGGGCAAAAGCUGA
((.---.(((((((((..((.(((((((((.........))))))))))))))))((...(((......))).))...))))..))........ ( -22.50)
>DroSec_CAF1 11169 91 + 1
UGU---ACUUUCAAGAAAUACGUUUUUUCCAGUGUCAAAGGAGAAGGCUAGCUGUGCGAGAGCGAGAGAGCUAGCGAAAAAGGGCAAAAGCUGA
...---..((((...........(((((((.........)))))))(((((((.(((....)))....)))))))))))...(((....))).. ( -24.60)
>DroSim_CAF1 11267 91 + 1
UGU---GCUUUCAAGAAAUACGUUUUUUCCAGUGUCGAAGGAGAAGGCUAGCUGUGCGAGAGCGAGAGAGCUAGCGAAAAAGGGCAAAAGCUGA
(((---.((((............(((((((.........)))))))(((((((.(((....)))....)))))))...)))).)))........ ( -25.70)
>DroEre_CAF1 11507 86 + 1
UGGGU--------GGCAAUACGUUUUUUCCAGUGUCGAAGGAGAAGGCUAGCUGUGCAAGAGCGAGAGAGCUAGCGAAAAAGGGCAAAAGCUGA
...((--------(....)))(((((((((..(.((....)).)..(((((((.(((....)))....)))))))......))).))))))... ( -22.10)
>DroYak_CAF1 12818 92 + 1
UGGAUUACUUU--AGGAAUAAGUUUUUUCCAGUGUUGAAGGAGAAGGCUAGCUGUGCAAGAGCGAGAGAGCUAGCGAAAAAGGGCAAAAGCUGA
.......((((--..........(((((((.........)))))))(((((((.(((....)))....)))))))...))))(((....))).. ( -21.50)
>consensus
UGU___ACUUUC_AGAAAUACGUUUUUUCCAGUGUCGAAGGAGAAGGCUAGCUGUGCGAGAGCGAGAGAGCUAGCGAAAAAGGGCAAAAGCUGA
.....................(((((((((..(.((....)).)..(((((((.(((....)))....)))))))......))).))))))... (-20.70 = -21.08 +   0.38)

alignment

secondary structure

dotplot

Window 8

Location	17,073,638 – 17,073,729
Length	91
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	89.31
Mean single sequence MFE	-16.55
Consensus MFE	-11.88
Energy contribution	-12.08
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.93
Structure conservation index	0.72
SVM decision value	0.24
SVM RNA-class probability	0.648058
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17073638 91 - 20766785
UCAGCUUUUGCCCUUUUUCGCUAGCUCUCUCGCUCUCACCCAGCUAGCCUUCUCCUUCGACACUGGAAAAAACGUAUUACUGGAAAGU---ACA
((((.(..(((..(((((((((((((...............)))))))..((......)).....))))))..)))..))))).....---... ( -15.36)
>DroSec_CAF1 11169 91 - 1
UCAGCUUUUGCCCUUUUUCGCUAGCUCUCUCGCUCUCGCACAGCUAGCCUUCUCCUUUGACACUGGAAAAAACGUAUUUCUUGAAAGU---ACA
...((....))..(((((((((((((.....((....))..)))))))..((......)).....))))))..((((((.....))))---)). ( -16.80)
>DroSim_CAF1 11267 91 - 1
UCAGCUUUUGCCCUUUUUCGCUAGCUCUCUCGCUCUCGCACAGCUAGCCUUCUCCUUCGACACUGGAAAAAACGUAUUUCUUGAAAGC---ACA
...((((((..........(((((((.....((....))..)))))))....(((.........)))...............))))))---... ( -18.30)
>DroEre_CAF1 11507 86 - 1
UCAGCUUUUGCCCUUUUUCGCUAGCUCUCUCGCUCUUGCACAGCUAGCCUUCUCCUUCGACACUGGAAAAAACGUAUUGCC--------ACCCA
...((...(((..(((((((((((((.....((....))..)))))))..((......)).....))))))..)))..)).--------..... ( -16.80)
>DroYak_CAF1 12818 92 - 1
UCAGCUUUUGCCCUUUUUCGCUAGCUCUCUCGCUCUUGCACAGCUAGCCUUCUCCUUCAACACUGGAAAAAACUUAUUCCU--AAAGUAAUCCA
...(((((...........(((((((.....((....))..)))))))................((((........)))).--)))))...... ( -15.50)
>consensus
UCAGCUUUUGCCCUUUUUCGCUAGCUCUCUCGCUCUCGCACAGCUAGCCUUCUCCUUCGACACUGGAAAAAACGUAUUUCU_GAAAGU___ACA
...((....))........(((((((.....((....))..)))))))....(((.........)))........................... (-11.88 = -12.08 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:03 2006