Locus 8590

Sequence ID	3R_DroMel_CAF1
Location	22,980,907 – 22,981,067
Length	160
Max. P	0.973869

overview

Window 0

Location	22,980,907 – 22,981,027
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	94.17
Mean single sequence MFE	-47.05
Consensus MFE	-41.67
Energy contribution	-41.30
Covariance contribution	-0.37
Combinations/Pair	1.08
Mean z-score	-1.46
Structure conservation index	0.89
SVM decision value	0.05
SVM RNA-class probability	0.557011
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22980907 120 + 27905053
UCCAGGGAACCGCCUCCGUGGCCGUUGCUGGGCUCUAUGCCUCCAAGCGUAUUACGGGUAAGUCCUUCAAGGACUACACCUUCCUGUUUGCAGGAGCCGGUGAGGCCGCCAUCGGCAUCG
...........(((...((((((...(((((((.....))))...)))...((((.(((.(((((.....)))))......(((((....)))))))).))))))))))....))).... ( -47.20)
>DroSec_CAF1 11818 120 + 1
UCCAGGGCACCGCAUCCGUGGCCGUAGCUGGACUCUAUGCCUCCAAGCGUAUUACGGGCAAGUCCUUCAAGGACUACACCUUCCUGUUCGCAGGAGCCGGUGAGGCCGCCAUCGGCAUCG
(((((.((.((((....))))..))..)))))....(((((.....(((..((((.(((.(((((.....)))))......(((((....)))))))).))))...)))....))))).. ( -46.40)
>DroEre_CAF1 5749 120 + 1
UCCAGGGAACCGCUUCCGUGGCCGUAGCUGGACUGUAUGCCUCCAAGCGCAUAACAGGCAAGUCCUUCAAGGACUACACCUUCCUGUUCGCAGGAGCCGGUGAGGCCGCCAUCGGCAUUG
.((..((((....))))((((((...(((((.(((((((((.....).)))).))))...(((((.....))))).....((((((....)))))))))))..))))))....))..... ( -45.60)
>DroYak_CAF1 12387 120 + 1
UCCAGGGAACCGCAUCCGUGGCCGUAGCUGGACUCUAUGCCUCCAAGCGCAUUACCGGCAAGUCCUUCAAGGACUACACCUUCCUGUUCGCAGGAGCCGGUGAGGCUGCCAUCGGCAUUG
..((.(((......))).))((((..((((((.........))).)))((.((((((((.(((((.....)))))......(((((....))))))))))))).))......)))).... ( -49.00)
>consensus
UCCAGGGAACCGCAUCCGUGGCCGUAGCUGGACUCUAUGCCUCCAAGCGCAUUACGGGCAAGUCCUUCAAGGACUACACCUUCCUGUUCGCAGGAGCCGGUGAGGCCGCCAUCGGCAUCG
(((((((..((((....))))))....)))))....(((((.....((((.((((.(((.(((((.....)))))......(((((....)))))))).)))).)).))....))))).. (-41.67 = -41.30 +  -0.37)

alignment

secondary structure

dotplot

Window 1

Location	22,980,947 – 22,981,067
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	95.00
Mean single sequence MFE	-51.00
Consensus MFE	-46.25
Energy contribution	-46.12
Covariance contribution	-0.12
Combinations/Pair	1.08
Mean z-score	-2.54
Structure conservation index	0.91
SVM decision value	1.72
SVM RNA-class probability	0.973869
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22980947 120 + 27905053
CUCCAAGCGUAUUACGGGUAAGUCCUUCAAGGACUACACCUUCCUGUUUGCAGGAGCCGGUGAGGCCGCCAUCGGCAUCGCCGAUCUCACGGUCAAGGCCAUGGUGCAGGAUGGUGUGCC
...........((((.(((.(((((.....)))))......(((((....)))))))).))))((((((((((.((((((((((((....))))..)))...)))))..))))))).))) ( -50.40)
>DroSec_CAF1 11858 120 + 1
CUCCAAGCGUAUUACGGGCAAGUCCUUCAAGGACUACACCUUCCUGUUCGCAGGAGCCGGUGAGGCCGCCAUCGGCAUCGCCGAUCUCACGGUCAAGGCCAUGGUGCAGGAUGGUGUGCC
...........((((.(((.(((((.....)))))......(((((....)))))))).))))((((((((((.((((((((((((....))))..)))...)))))..))))))).))) ( -52.70)
>DroEre_CAF1 5789 120 + 1
CUCCAAGCGCAUAACAGGCAAGUCCUUCAAGGACUACACCUUCCUGUUCGCAGGAGCCGGUGAGGCCGCCAUCGGCAUUGCCGAUCUCACCGUCAAGGCCAUGGUGCAAGAUGGUGUGCC
......((((......(((.(((((.....))))).((((((((((....))))))..))))..)))(((((((((...))).....((((((.......))))))...)))))))))). ( -48.00)
>DroYak_CAF1 12427 120 + 1
CUCCAAGCGCAUUACCGGCAAGUCCUUCAAGGACUACACCUUCCUGUUCGCAGGAGCCGGUGAGGCUGCCAUCGGCAUUGCCGAUCUCACCGUCAAGGCCAUGGUGCAAGACGGUGUGCC
......((((.((((((((.(((((.....)))))......(((((....))))))))))))).)).)).((((((...))))))(.(((((((...((......))..))))))).).. ( -52.90)
>consensus
CUCCAAGCGCAUUACGGGCAAGUCCUUCAAGGACUACACCUUCCUGUUCGCAGGAGCCGGUGAGGCCGCCAUCGGCAUCGCCGAUCUCACCGUCAAGGCCAUGGUGCAAGAUGGUGUGCC
...........((((.(((.(((((.....)))))......(((((....)))))))).))))((((((((((.(((((((((((......)))..)))...)))))..))))))).))) (-46.25 = -46.12 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:14:52 2006