Locus 6927

Sequence ID	X_DroMel_CAF1
Location	17,336,684 – 17,336,816
Length	132
Max. P	0.987680

overview

Window 6

Location	17,336,684 – 17,336,802
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.57
Mean single sequence MFE	-22.08
Consensus MFE	-20.52
Energy contribution	-20.60
Covariance contribution	0.08
Combinations/Pair	1.07
Mean z-score	-1.67
Structure conservation index	0.93
SVM decision value	2.09
SVM RNA-class probability	0.987680
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17336684 118 - 22224390
UUUCCGGUUUCUUGCCUUCCAUUGUCCCAUC-CAGUGGCGAACUUUUCUUUUAGCGUUAUUAAUCCGCUUUGGGAACUUUGUACUAUGACACAAAGGCACUUUCCCACACACCCACACA-
.....(((.....)))...............-..((((.(((...(((((..((((.........))))..)))))((((((........)))))).....)))))))...........- ( -22.60)
>DroSec_CAF1 53880 113 - 1
UUUCCGGUUUCUUGCCUUCCAUUGUCCCAUCCCAGUGGCAAACUUUUCUUUUAGCGUUAUUAAUCCGCUUUGGGAACUUUGUACUAUGACACAAAGGCACUCUCUCACA------UACA-
............((((((.(((((........)))))(((((...(((((..((((.........))))..))))).)))))...........))))))..........------....- ( -20.70)
>DroSim_CAF1 43730 113 - 1
UUUCCGGUUUCUUGCCUUCCAUUGUCCCAUCCCAGUGGCAAACUUUUCUUUUAGCGUUAUUAAUCCGCUUUGGGAACUUUGUACUAUGACACAAAGGCACUCUCCCACA------UACA-
.....((.....((((((.(((((........)))))(((((...(((((..((((.........))))..))))).)))))...........)))))).....))...------....- ( -22.60)
>DroEre_CAF1 54371 118 - 1
UUUCCGGUUUCUUGCCUUCCAUUGUCCCAUC-CAGUGGCAAACUUUUCUUUUAGCGUUAUUAAUCCGCUUUGGGAACUUUGUACUAUGACACAAAGGCACUCUCCCACACUUGCACACU-
.....(((.....)))...............-.((((((((...........((((.........)))).(((((.((((((........))))))......)))))...)))).))))- ( -22.60)
>DroYak_CAF1 45159 119 - 1
UUUCCGGUUUCUUGCCUUCCAUUUUCCCAUU-CAGCGGCAAACUUUUCUUUUAGCGUUAUUAAUCCGCUUUGGGAACUUUGUACUAUGACACAAAGGCACUCUCCCACACUUCCACACUC
.....((.....((((((.....((((((..-.(((((..(((.((......)).)))......))))).))))))...(((......)))..)))))).....)).............. ( -21.90)
>consensus
UUUCCGGUUUCUUGCCUUCCAUUGUCCCAUC_CAGUGGCAAACUUUUCUUUUAGCGUUAUUAAUCCGCUUUGGGAACUUUGUACUAUGACACAAAGGCACUCUCCCACAC___CACACA_
.....((.....((((((.(((((........)))))(((((...(((((..((((.........))))..))))).)))))...........)))))).....)).............. (-20.52 = -20.60 +   0.08)

alignment

secondary structure

dotplot

Window 7

Location	17,336,723 – 17,336,816
Length	93
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	97.23
Mean single sequence MFE	-15.38
Consensus MFE	-13.56
Energy contribution	-13.96
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.62
Structure conservation index	0.88
SVM decision value	0.98
SVM RNA-class probability	0.894122
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17336723 93 - 22224390
AAAAUCAUACUUCCUUUCCGGUUUCUUGCCUUCCAUUGUCCCAUC-CAGUGGCGAACUUUUCUUUUAGCGUUAUUAAUCCGCUUUGGGAACUUU
....((.............(((.....)))..((((((.......-)))))).))....(((((..((((.........))))..))))).... ( -15.50)
>DroSec_CAF1 53913 94 - 1
AAAAUCAUACUUCCUUUCCGGUUUCUUGCCUUCCAUUGUCCCAUCCCAGUGGCAAACUUUUCUUUUAGCGUUAUUAAUCCGCUUUGGGAACUUU
...................(((.....)))..((((((........)))))).......(((((..((((.........))))..))))).... ( -15.40)
>DroSim_CAF1 43763 94 - 1
AAAAUCAUACUUCCUUUCCGGUUUCUUGCCUUCCAUUGUCCCAUCCCAGUGGCAAACUUUUCUUUUAGCGUUAUUAAUCCGCUUUGGGAACUUU
...................(((.....)))..((((((........)))))).......(((((..((((.........))))..))))).... ( -15.40)
>DroEre_CAF1 54410 93 - 1
AAAAUCAUACUUCCUUUCCGGUUUCUUGCCUUCCAUUGUCCCAUC-CAGUGGCAAACUUUUCUUUUAGCGUUAUUAAUCCGCUUUGGGAACUUU
...................(((.....)))..((((((.......-)))))).......(((((..((((.........))))..))))).... ( -15.10)
>DroYak_CAF1 45199 93 - 1
AAAAUCACACUUCCUUUCCGGUUUCUUGCCUUCCAUUUUCCCAUU-CAGCGGCAAACUUUUCUUUUAGCGUUAUUAAUCCGCUUUGGGAACUUU
...................(((.....))).......((((((..-.(((((..(((.((......)).)))......))))).)))))).... ( -15.50)
>consensus
AAAAUCAUACUUCCUUUCCGGUUUCUUGCCUUCCAUUGUCCCAUC_CAGUGGCAAACUUUUCUUUUAGCGUUAUUAAUCCGCUUUGGGAACUUU
...................(((.....)))..((((((........)))))).......(((((..((((.........))))..))))).... (-13.56 = -13.96 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:06 2006