Locus 4414

Sequence ID	X_DroMel_CAF1
Location	11,651,223 – 11,651,333
Length	110
Max. P	0.994967

overview

Window 2

Location	11,651,223 – 11,651,319
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	97.71
Mean single sequence MFE	-21.26
Consensus MFE	-19.93
Energy contribution	-20.33
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.82
Structure conservation index	0.94
SVM decision value	2.13
SVM RNA-class probability	0.988657
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11651223 96 + 22224390
UAACAAUAACAAAAUCAUAAACGAAAAACGACGAAAAGGAAACUUAAGUAAAACGUACGACGCAGCGCAGUCGUUGUGUCUGUAUUGGUGCGUGUG
........(((..((((.............((...(((....)))..)).....(((((((((((((....))))))))).))))))))...))). ( -22.10)
>DroSec_CAF1 24559 96 + 1
UAACAAUAACAAAAUCAUAAACGAAAAAGGACGAAAAGGAAACUUAAGUAAAACGUACGACGCAGCGCAGUCGUUGUGUCUGUAUUGGUGCGUGUG
........(((..((((.............((...(((....)))..)).....(((((((((((((....))))))))).))))))))...))). ( -22.10)
>DroSim_CAF1 20638 96 + 1
UAACAAUAACAAAAUCAUAAACGAAAAACGACGAAAAGGAAACUUAAGUAAAACGUACGACGCAGCGCAGUCGUUGUGUCUGUAUUGGUGCGUGUG
........(((..((((.............((...(((....)))..)).....(((((((((((((....))))))))).))))))))...))). ( -22.10)
>DroEre_CAF1 26756 96 + 1
UAACAAUAACAAAAUCAUAAACGAAAAACGACGAAAAGGAAACUCAAGUAAAACGUACGACGCAGCGCAGUCGUUGUGUCUGUAUUGGUGCGUGUG
........(((..((((.............((....((....))...)).....(((((((((((((....))))))))).))))))))...))). ( -20.80)
>DroYak_CAF1 24033 93 + 1
UAACAAUAACAAAAUCAUAAACGAAAAACGACGAAAAGGAAACUCAAGUAAAACGUACGACGCAGCGCAGUCGUUGUGUCUGUAUUGGUGCGU---
...(((((.((.........(((.......((....((....))...))....)))..(((((((((....))))))))))))))))......--- ( -19.20)
>consensus
UAACAAUAACAAAAUCAUAAACGAAAAACGACGAAAAGGAAACUUAAGUAAAACGUACGACGCAGCGCAGUCGUUGUGUCUGUAUUGGUGCGUGUG
..............................((...(((....)))..))...(((((((((((((((....))))))))).......))))))... (-19.93 = -20.33 +   0.40)

alignment

secondary structure

dotplot

Window 3

Location	11,651,240 – 11,651,333
Length	93
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	93.55
Mean single sequence MFE	-25.96
Consensus MFE	-22.13
Energy contribution	-23.53
Covariance contribution	1.40
Combinations/Pair	1.00
Mean z-score	-2.25
Structure conservation index	0.85
SVM decision value	2.53
SVM RNA-class probability	0.994967
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11651240 93 + 22224390
UAAACGAAAAACGACGAAAAGGAAACUUAAGUAAAACGUACGACGCAGCGCAGUCGUUGUGUCUGUAUUGGUGCGUGUGCGUGAAUUUGUGAA
...(((((..(((((...(((....))).......(((((((((((((((....))))))))).......)))))))).)))...)))))... ( -26.71)
>DroSec_CAF1 24576 93 + 1
UAAACGAAAAAGGACGAAAAGGAAACUUAAGUAAAACGUACGACGCAGCGCAGUCGUUGUGUCUGUAUUGGUGCGUGUGCGUGAGUUUGUGAA
(((((........((...(((....)))..))...(((((((((((((((....))))))))).(((....)))..))))))..))))).... ( -26.70)
>DroSim_CAF1 20655 93 + 1
UAAACGAAAAACGACGAAAAGGAAACUUAAGUAAAACGUACGACGCAGCGCAGUCGUUGUGUCUGUAUUGGUGCGUGUGCGUGAGUUUGUGAA
...(((((..(((((...(((....))).......(((((((((((((((....))))))))).......)))))))).)))...)))))... ( -27.81)
>DroEre_CAF1 26773 93 + 1
UAAACGAAAAACGACGAAAAGGAAACUCAAGUAAAACGUACGACGCAGCGCAGUCGUUGUGUCUGUAUUGGUGCGUGUGCGUGUGAUUGUGUG
...((((...((.((....((....))...))...(((((((((((((((....))))))))).(((....)))..))))))))..))))... ( -25.10)
>DroYak_CAF1 24050 87 + 1
UAAACGAAAAACGACGAAAAGGAAACUCAAGUAAAACGUACGACGCAGCGCAGUCGUUGUGUCUGUAUUGGUGCGU------GUGUUUGUGUG
...(((((..(((((....((....))..........(((((((((((((....))))))))).))))..)).)))------...)))))... ( -23.50)
>consensus
UAAACGAAAAACGACGAAAAGGAAACUUAAGUAAAACGUACGACGCAGCGCAGUCGUUGUGUCUGUAUUGGUGCGUGUGCGUGAGUUUGUGAA
...(((((..(((((...(((....)))..))...(((((((((((((((....))))))))).......))))))...)))...)))))... (-22.13 = -23.53 +   1.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:27 2006