Locus 6546

Sequence ID	X_DroMel_CAF1
Location	16,392,194 – 16,392,514
Length	320
Max. P	0.939109

overview

Window 5

Location	16,392,194 – 16,392,314
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	96.83
Mean single sequence MFE	-37.83
Consensus MFE	-36.54
Energy contribution	-36.23
Covariance contribution	-0.30
Combinations/Pair	1.14
Mean z-score	-0.84
Structure conservation index	0.97
SVM decision value	0.40
SVM RNA-class probability	0.721350
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16392194 120 - 22224390
UCCGGGCGCACGAGGCGCAGGACGCCGGCUACCGCAUGUACCGCAAAAGCCAGACCACCGGCUUCCCCUCGCUGAUCACCAUCUUCUCGGCGCCCAACUAUCUCGACGUGUACAACAACA
...((((((.(((((((..(((.(((((((...((.......))...)))).(.....)))).)))...))).(((....)))..))))))))))......................... ( -38.50)
>DroVir_CAF1 18857 120 - 1
UACGGGCGCACGAGGCGCAGGACGCCGGCUACCGCAUGUACCGCAAGAGCCAGACCACCGGUUUCCCCUCGCUGAUCACCAUCUUCUCGGCGCCCAACUAUCUCGACGUGUACAACAACA
...((((((.(((((((..(((.(((((((...((.......))...)))).(.....)))).)))...))).(((....)))..))))))))))......................... ( -38.10)
>DroGri_CAF1 10695 120 - 1
UACGGGCGCACGAGGCACAGGACGCCGGCUACCGCAUGUACCGUAAGAGCCAGACCACCGGUUUUCCCUCGCUGAUCACCAUCUUCUCGGCGCCCAAUUAUCUGGACGUGUACAACAACA
...((((((.((((((...(((.(((((((...((.......))...)))).(.....))))..)))...)).(((....)))..))))))))))......................... ( -32.40)
>DroSec_CAF1 13280 120 - 1
UCCGGGCGCACGAGGCGCAGGACGCCGGCUACCGCAUGUACCGCAAGAGCCAGACCACCGGCUUCCCCUCGCUGAUCACCAUUUUCUCGGCGCCCAACUAUCUCGACGUGUACAACAACA
...((((((.(((((((..(((.(((((((...((.......))...)))).(.....)))).)))...)))((.....))....))))))))))......................... ( -38.60)
>DroMoj_CAF1 11165 120 - 1
UACGGGCGCACGAGGCGCAGGACGCCGGCUACCGCAUGUACCGCAAGAGCCAGACCACCGGUUUCCCCUCGCUGAUCACCAUCUUCUCGGCGCCCAACUAUCUCGACGUGUACAACAACA
...((((((.(((((((..(((.(((((((...((.......))...)))).(.....)))).)))...))).(((....)))..))))))))))......................... ( -38.10)
>DroAna_CAF1 8603 120 - 1
UCCGGGCGCACGAGGCGCAGGACGCCGGCUACCGCAUGUACCGGAAGAGCCAGACCACCGGCUUCCCCUCGCUGAUCACCAUCUUCUCGGCGCCCAACUAUCUCGACGUGUACAACAACA
...((((((.(((((((.(((...((((.(((.....)))))))..(((((........)))))..)))))).(((....)))..))))))))))......................... ( -41.30)
>consensus
UACGGGCGCACGAGGCGCAGGACGCCGGCUACCGCAUGUACCGCAAGAGCCAGACCACCGGCUUCCCCUCGCUGAUCACCAUCUUCUCGGCGCCCAACUAUCUCGACGUGUACAACAACA
...((((((.(((((((..(((.(((((((...((.......))...)))).(.....)))).)))...))).(((....)))..))))))))))......................... (-36.54 = -36.23 +  -0.30)

alignment

secondary structure

dotplot

Window 6

Location	16,392,314 – 16,392,434
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	96.89
Mean single sequence MFE	-35.60
Consensus MFE	-32.98
Energy contribution	-32.70
Covariance contribution	-0.28
Combinations/Pair	1.09
Mean z-score	-1.28
Structure conservation index	0.93
SVM decision value	0.99
SVM RNA-class probability	0.896810
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16392314 120 - 22224390
ACUUUGGCAACGAGAAGAACUCGGACUUCUACACGCACAACUCCGUGCGCGGAUGCUCGUACUUCUACAGCUACGCCGCCUGCUGCGACUUCCUGCAGAACAACAACCUGCUGUCGAUCA
.....((((.((((.....))))...........((((......))))((((..(((.(((....))))))....)))).)))).((((.....((((.........)))).)))).... ( -32.70)
>DroVir_CAF1 18977 120 - 1
ACUUUGGCAACGAGAAGAACUCGGACUUCUACACGCACAACUCGGUGCGUGGCUGUUCGUAUUUCUACAGCUACGCCGCCUGCUGCGACUUCCUGCAGAACAACAAUCUGCUGUCGAUCA
...((((((.((((.....))))..........((((((....(((((((((((((..........))))))))).)))))).)))).......(((((.......)))))))))))... ( -38.80)
>DroGri_CAF1 10815 120 - 1
ACUUCGGCAACGAGAAGAACUCGGACUUCUACACGCACAACUCGGUGCGCGGCUGUUCGUAUUUCUACAGCUACGCCGCCUGCUGCGACUUCCUGCAGAACAACAACCUGCUGUCGAUCA
...((((((.((((.....))))...........(((......((((((..(((((..........)))))..)).))))..(((((......)))))..........)))))))))... ( -35.50)
>DroYak_CAF1 9721 120 - 1
ACUUCGGCAACGAGAAGAACUCGGACUUCUACACGCACAACUCCGUGCGCGGCUGCUCGUACUUCUACAGCUACGCCGCCUGCUGCGACUUCCUGCAGAACAACAACCUGCUGUCGAUCA
....(((((.((((.....))))...........((((......))))(((((.(((.(((....))))))...))))).)))))((((.....((((.........)))).)))).... ( -36.80)
>DroMoj_CAF1 11285 120 - 1
ACUUUGGCAACGAGAAGAACUCGGACUUCUACACGCACAACUCGGUGCGCGGCUGUUCGUAUUUCUACAGCUACGCCGCCUGCUGCGACUUCCUGCAGAACAACAAUCUGCUGUCGAUCA
...((((((.((((.....))))..........((((((....((((((..(((((..........)))))..)).)))))).)))).......(((((.......)))))))))))... ( -35.10)
>DroAna_CAF1 8723 120 - 1
ACUUUGGCAACGAGAAGAACUCGGACUUCUACACGCACAACUCGGUGCGCGGGUGCUCGUACUUCUACAGCUACGCCGCCUGCUGCGACUUCCUGCAGAACAACAACCUGCUGUCGAUCA
...((((((..(((.....)))(((..((.....((((......))))(((((((..((((((.....)).)))).)))))))...))..))).((((.........))))))))))... ( -34.70)
>consensus
ACUUUGGCAACGAGAAGAACUCGGACUUCUACACGCACAACUCGGUGCGCGGCUGCUCGUACUUCUACAGCUACGCCGCCUGCUGCGACUUCCUGCAGAACAACAACCUGCUGUCGAUCA
....(((((.((((.....))))...........((((......))))(((((.(((.(((....))))))...))))).)))))((((.....((((.........)))).)))).... (-32.98 = -32.70 +  -0.28)

alignment

secondary structure

dotplot

Window 7

Location	16,392,394 – 16,392,514
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	93.89
Mean single sequence MFE	-46.23
Consensus MFE	-42.54
Energy contribution	-42.82
Covariance contribution	0.28
Combinations/Pair	1.03
Mean z-score	-1.47
Structure conservation index	0.92
SVM decision value	1.28
SVM RNA-class probability	0.939109
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16392394 120 - 22224390
CAUCCGGCGGCUCGACCGCUUCAAGGAGCCGCCCGCCUUUGGCCCCAUGUGCGACCUGCUGUGGUCCGAUCCCCUGGAGGACUUUGGCAACGAGAAGAACUCGGACUUCUACACGCACAA
.....((((((((............)))))))).(((...)))....((((((...(((((.(((((..(((...)))))))).))))).((((.....))))..........)))))). ( -45.10)
>DroVir_CAF1 19057 120 - 1
CAUAAGGCGGCUCGAUAGAUUCAAGGAGCCGCCCGCCUUUGGCCCCAUGUGCGAUCUGCUGUGGUCCGAUCCGCUCGAGGACUUUGGCAACGAGAAGAACUCGGACUUCUACACGCACAA
.....((((((((............)))))))).(((...)))....((((((...((..(.((((((((((......))).((((....))))......))))))).)..)))))))). ( -44.30)
>DroGri_CAF1 10895 120 - 1
CAUUAGGCGGCUCGAUAGAUUCAAGGAGCCGCCCGCCUUUGGCCCCAUGUGCGACUUGCUGUGGUCCGAUCCGCUCGAGGACUUCGGCAACGAGAAGAACUCGGACUUCUACACGCACAA
.....((((((((............)))))))).(((...)))....((((((..((((((.(((((...........))))).))))))((((.....))))..........)))))). ( -46.80)
>DroSec_CAF1 13480 120 - 1
CAUACGGCGGCUCGACCGCUUCAAGGAGCCGCCCGCCUUCGGCCCCAUGUGCGACCUGCUGUGGUCCGAUCCGCUGGAGGACUUCGGCAACGAGAAGAACUCGGACUUCUACACGCACAA
.....((((((((............)))))))).(((...)))....((((((...(((((.(((((..(((...)))))))).))))).((((.....))))..........)))))). ( -47.40)
>DroMoj_CAF1 11365 120 - 1
CAUUAGGCGGCUGGAUAGAUUCAAGGAGCCGCCCGCCUUUGGCCCCAUGUGCGACCUGCUGUGGUCCGAUCCGCUCGAGGACUUUGGCAACGAGAAGAACUCGGACUUCUACACGCACAA
.....(((((((.((.....))....))))))).(((...)))....((((((...((..(.((((((((((......))).((((....))))......))))))).)..)))))))). ( -42.00)
>DroAna_CAF1 8803 120 - 1
UAUCAGGCGGCUGGAUAGGUUCAAGGAGCCGCCGGCCUUCGGGCCCAUGUGCGACCUGCUGUGGUCCGAUCCGCUGGAGGACUUUGGCAACGAGAAGAACUCGGACUUCUACACGCACAA
.....(((((((.((.....))....)))))))((((....))))..((((((...(((((.(((((..(((...)))))))).))))).((((.....))))..........)))))). ( -51.80)
>consensus
CAUAAGGCGGCUCGAUAGAUUCAAGGAGCCGCCCGCCUUUGGCCCCAUGUGCGACCUGCUGUGGUCCGAUCCGCUCGAGGACUUUGGCAACGAGAAGAACUCGGACUUCUACACGCACAA
.....((((((((............)))))))).(((...)))....((((((...((..(.((((((((((......))).((((....))))......))))))).)..)))))))). (-42.54 = -42.82 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:29 2006