Locus 7501

Sequence ID	X_DroMel_CAF1
Location	18,694,662 – 18,694,758
Length	96
Max. P	0.907877

overview

Window 4

Location	18,694,662 – 18,694,758
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	96.56
Mean single sequence MFE	-43.04
Consensus MFE	-39.94
Energy contribution	-40.50
Covariance contribution	0.56
Combinations/Pair	1.03
Mean z-score	-1.38
Structure conservation index	0.93
SVM decision value	0.93
SVM RNA-class probability	0.884664
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18694662 96 + 22224390
AGGAGGAGCGUCCUCCUGUCCAGGAACAGCCACUGGCCAAGCCUCCGCCGACGGCUGCCGAGGUCAGCGCCGCCAAGGCGGCCAAGCAGAAGCGCA
((((((.....))))))(.((.((..(((((..((((.........))))..)))))))..)).).(((((((....)))))...((....)))). ( -41.20)
>DroSec_CAF1 2245 96 + 1
AGGAGGAGCGUCCUCCUGUCCAGGAACAGCCGCUGGCCAAGCCCCCGCCGACGGCUGCCGAGGUCAGCGCCGCCAAGGCGGCCAAGCAGAAGCGCA
((((((.....))))))(.((.((..((((((.((((.........)))).))))))))..)).).(((((((....)))))...((....)))). ( -44.70)
>DroSim_CAF1 2966 96 + 1
AGGAGGAGCGUCCUCCUGUCCAGGAACAGCCGCUGGCCAAGCCCCCGCCGACGGCUGCCGAGGUCAGCGCCGCCAAGGCGGCCAAGCAGAAGCGCA
((((((.....))))))(.((.((..((((((.((((.........)))).))))))))..)).).(((((((....)))))...((....)))). ( -44.70)
>DroEre_CAF1 2279 96 + 1
AGGAGGAGCGUCCUCCCGUACAGGAACAGCCGCUGGCCAAGCCCCCGCCGACGGCUGCCGAGGUUAGCGCCGCCAAGGCGGCCAAGCAGAAGCGCA
.(((((.....)))))......((..((((((.((((.........)))).)))))))).......(((((((....)))))...((....)))). ( -40.60)
>DroYak_CAF1 2262 96 + 1
AGGAGGAGCGUCCUCCUGUCCAGGAACAACCGGUGGCCAAGCCACCGCCGACGGCUGCCGAGGUUAGCGCCGCCAAGGCGGCCAAGCAGAAGCGCA
((((((.....))))))(((..((.....))((((((...))))))...)))(((((((..(((.......)))..)))))))..((......)). ( -44.00)
>consensus
AGGAGGAGCGUCCUCCUGUCCAGGAACAGCCGCUGGCCAAGCCCCCGCCGACGGCUGCCGAGGUCAGCGCCGCCAAGGCGGCCAAGCAGAAGCGCA
.(((((.....)))))((.((.((..((((((.((((.........)))).))))))))..)).))(((((((....)))))...((....)))). (-39.94 = -40.50 +   0.56)

alignment

secondary structure

dotplot

Window 5

Location	18,694,662 – 18,694,758
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	96.56
Mean single sequence MFE	-48.32
Consensus MFE	-45.88
Energy contribution	-46.36
Covariance contribution	0.48
Combinations/Pair	1.06
Mean z-score	-1.36
Structure conservation index	0.95
SVM decision value	1.06
SVM RNA-class probability	0.907877
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18694662 96 - 22224390
UGCGCUUCUGCUUGGCCGCCUUGGCGGCGCUGACCUCGGCAGCCGUCGGCGGAGGCUUGGCCAGUGGCUGUUCCUGGACAGGAGGACGCUCCUCCU
...(((.(((((.((((.((((((((((((((....)))).)))))))).)).)))).)).))).)))((((....))))(((((.....))))). ( -48.70)
>DroSec_CAF1 2245 96 - 1
UGCGCUUCUGCUUGGCCGCCUUGGCGGCGCUGACCUCGGCAGCCGUCGGCGGGGGCUUGGCCAGCGGCUGUUCCUGGACAGGAGGACGCUCCUCCU
...(((.(((((.((((.((((((((((((((....)))).)))))))).)).)))).)).))).)))((((....))))(((((.....))))). ( -50.30)
>DroSim_CAF1 2966 96 - 1
UGCGCUUCUGCUUGGCCGCCUUGGCGGCGCUGACCUCGGCAGCCGUCGGCGGGGGCUUGGCCAGCGGCUGUUCCUGGACAGGAGGACGCUCCUCCU
...(((.(((((.((((.((((((((((((((....)))).)))))))).)).)))).)).))).)))((((....))))(((((.....))))). ( -50.30)
>DroEre_CAF1 2279 96 - 1
UGCGCUUCUGCUUGGCCGCCUUGGCGGCGCUAACCUCGGCAGCCGUCGGCGGGGGCUUGGCCAGCGGCUGUUCCUGUACGGGAGGACGCUCCUCCU
...(((.(((((.((((.(((((((((((((......))).)))))))).)).)))).)).))).)))...........((((((.....)))))) ( -45.70)
>DroYak_CAF1 2262 96 - 1
UGCGCUUCUGCUUGGCCGCCUUGGCGGCGCUAACCUCGGCAGCCGUCGGCGGUGGCUUGGCCACCGGUUGUUCCUGGACAGGAGGACGCUCCUCCU
.(((((((((((.((((((((((((((((((......))).)))))))).))))))).)))..((((......))))...))))).)))....... ( -46.60)
>consensus
UGCGCUUCUGCUUGGCCGCCUUGGCGGCGCUGACCUCGGCAGCCGUCGGCGGGGGCUUGGCCAGCGGCUGUUCCUGGACAGGAGGACGCUCCUCCU
...(((.(((((.((((.((((((((((((((....)))).)))))))).)).)))).)).))).)))((((....))))(((((.....))))). (-45.88 = -46.36 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:30 2006