Locus 6519

Sequence ID	X_DroMel_CAF1
Location	16,338,128 – 16,338,246
Length	118
Max. P	0.934509

overview

Window 5

Location	16,338,128 – 16,338,246
Length	118
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	82.36
Mean single sequence MFE	-54.26
Consensus MFE	-33.70
Energy contribution	-33.98
Covariance contribution	0.28
Combinations/Pair	1.31
Mean z-score	-3.09
Structure conservation index	0.62
SVM decision value	0.87
SVM RNA-class probability	0.871337
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16338128 118 + 22224390
UGCAGUGCAGCCUCUUCGGCGGCAGCCGCAUCCGCUGCUGCCUGAGCCUGCGCAUUGGCCCGCUCCUCCAGCUUGGCCGCUUUGGCGGCGGCAGCUUCUUCCGCUUCCUACAACAAUU--
.((.((((((.(((...(((((((((.......))))))))).))).))))))...((((.(((.....)))..))))))...((.(((((.((...)).))))).))..........-- ( -53.10)
>DroVir_CAF1 131 118 + 1
UGCAGUGCCGCCUCUUCGGCGGCAGCGGCAUCGGCGGCGGCCUGUGCAUGCGCAUUGGCGCGCUCCUCCAGCUUAGCCGCCUUCGCAGCGGCCGCCUCCUCUGCCUCCUAUAAUGAUA--
.((..(((((((.....)))))))))((((..((.(((((((...((.((((....((((.(((..........)))))))..))))))))))))).))..)))).............-- ( -58.10)
>DroGri_CAF1 131 118 + 1
UGCAGUGCAGCCUCCUCGGCGGCGGCUGCAUCAGCGGCGGCCUGCGCCUGCGCAUUAGCGCGCUCCUCCAACUUGGCUGCUUUCGCAGCGGCCGCCUCUUCUGCCUCCUACAAUGAUA--
.(((((((((((.((.....)).)))))))..((.(((((((.((((..((......))))))............(((((....)))))))))))).)).))))..............-- ( -54.60)
>DroWil_CAF1 131 118 + 1
UGAAGAGCUGCCUCCUCGGCGGCAGCAGCAUCGGCAGCGGCCUGUGCCUGGGCAUUGGCUCUUUCCUCUAAUUUUGCUGCCUUGGCAGCUGCCGCUUCUUCUGCUUCCUAUAAUAAUG--
.(((((((.(((.....)))((((((.((...((((((((((.((((....)))).))))...............))))))...)).)))))))).))))).................-- ( -49.86)
>DroMoj_CAF1 131 120 + 1
UGCAGGGCCGCCUCCUCGGCGGCGGCUGCAUCUGCGGCGGCUUGCGCCUGCGCAUUGGCUCGCUCCUCCAACUUAGCGGCCUUCGCAGCGGCCGCCUCUUCUGCCUCCUAUAAUGAUAUA
.(((((((((......))))(((((((((....((((((.....)))).))((...(((.((((..........)))))))...)).)))))))))...)))))................ ( -53.50)
>DroAna_CAF1 131 118 + 1
UGCAGGGCGGCCUCCUCGGCGGCGGCCGCUUCCGCCGCUGCCUGCGCCUGCGCAUUGGCCCGCUCCUCCAGCUUGGCCGCCUUGGCGGCAGCUGCCUCCUCCGCUUCCUACAACGAUC--
.(((((((((((.....(((((((((.......)))))))))((((....))))..)).)))).))).(((((..(((((....))))))))))........))..............-- ( -56.40)
>consensus
UGCAGUGCAGCCUCCUCGGCGGCAGCCGCAUCCGCGGCGGCCUGCGCCUGCGCAUUGGCCCGCUCCUCCAACUUGGCCGCCUUCGCAGCGGCCGCCUCUUCUGCCUCCUACAAUGAUA__
.........(((.....)))(((((..((....))(((((((((((....)))).....................(((((....))))))))))))....)))))............... (-33.70 = -33.98 +   0.28)

alignment

secondary structure

dotplot

Window 6

Location	16,338,128 – 16,338,246
Length	118
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	82.36
Mean single sequence MFE	-58.22
Consensus MFE	-43.67
Energy contribution	-43.40
Covariance contribution	-0.27
Combinations/Pair	1.44
Mean z-score	-3.22
Structure conservation index	0.75
SVM decision value	1.24
SVM RNA-class probability	0.934509
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16338128 118 - 22224390
--AAUUGUUGUAGGAAGCGGAAGAAGCUGCCGCCGCCAAAGCGGCCAAGCUGGAGGAGCGGGCCAAUGCGCAGGCUCAGGCAGCAGCGGAUGCGGCUGCCGCCGAAGAGGCUGCACUGCA
--..(((((......))))).....(((((((((((....)))))...(((.....)))(((((........))))).)))))).((((.(((((((..(......).))))))))))). ( -51.50)
>DroVir_CAF1 131 118 - 1
--UAUCAUUAUAGGAGGCAGAGGAGGCGGCCGCUGCGAAGGCGGCUAAGCUGGAGGAGCGCGCCAAUGCGCAUGCACAGGCCGCCGCCGAUGCCGCUGCCGCCGAAGAGGCGGCACUGCA
--.............((((..((.((((((((((((....)))))...(((.....)))((((....)))).......))))))).))..))))(((((((((.....)))))))..)). ( -66.10)
>DroGri_CAF1 131 118 - 1
--UAUCAUUGUAGGAGGCAGAAGAGGCGGCCGCUGCGAAAGCAGCCAAGUUGGAGGAGCGCGCUAAUGCGCAGGCGCAGGCCGCCGCUGAUGCAGCCGCCGCCGAGGAGGCUGCACUGCA
--..............((((.((.((((((((((((....)))(((..(((.....)))((((....)))).))))).))))))).))..(((((((.((.....)).))))))))))). ( -62.80)
>DroWil_CAF1 131 118 - 1
--CAUUAUUAUAGGAAGCAGAAGAAGCGGCAGCUGCCAAGGCAGCAAAAUUAGAGGAAAGAGCCAAUGCCCAGGCACAGGCCGCUGCCGAUGCUGCUGCCGCCGAGGAGGCAGCUCUUCA
--.................(((((.((((((((.((...((((((....((....))..(.(((..(((....)))..))))))))))...)).))))))(((.....))).))))))). ( -50.10)
>DroMoj_CAF1 131 120 - 1
UAUAUCAUUAUAGGAGGCAGAAGAGGCGGCCGCUGCGAAGGCCGCUAAGUUGGAGGAGCGAGCCAAUGCGCAGGCGCAAGCCGCCGCAGAUGCAGCCGCCGCCGAGGAGGCGGCCCUGCA
..........((((.(((......(((((((((((((..(((((((..........)))).)))....)))).)))...))))))((....)).)))((((((.....)))))))))).. ( -57.30)
>DroAna_CAF1 131 118 - 1
--GAUCGUUGUAGGAAGCGGAGGAGGCAGCUGCCGCCAAGGCGGCCAAGCUGGAGGAGCGGGCCAAUGCGCAGGCGCAGGCAGCGGCGGAAGCGGCCGCCGCCGAGGAGGCCGCCCUGCA
--......((((((..((((....(((.((((((((....))((((..(((.....))).))))..((((....))))))))))(((((......)))))))).......)))))))))) ( -61.50)
>consensus
__UAUCAUUAUAGGAAGCAGAAGAGGCGGCCGCUGCCAAGGCGGCCAAGCUGGAGGAGCGAGCCAAUGCGCAGGCGCAGGCCGCCGCCGAUGCAGCCGCCGCCGAGGAGGCGGCACUGCA
................((((..(.((((((((((((....)))))...(((.....)))(.(((........))).).))))))).)....((((((.((.....)).)))))).)))). (-43.67 = -43.40 +  -0.27)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:50 2006