Locus 6571

Sequence ID	2L_DroMel_CAF1
Location	18,492,309 – 18,492,442
Length	133
Max. P	0.835152

overview

Window 4

Location	18,492,309 – 18,492,423
Length	114
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	94.65
Mean single sequence MFE	-32.20
Consensus MFE	-26.24
Energy contribution	-26.92
Covariance contribution	0.68
Combinations/Pair	1.09
Mean z-score	-1.73
Structure conservation index	0.81
SVM decision value	0.73
SVM RNA-class probability	0.835152
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18492309 114 - 22407834
ACAAAUUUGUAUACGGAUUGCAAUAGAACGCGGUUGCCAAUCAAAUUGGCGGCAGCUCUUGCAACAUUAUGUGCACUGGUCAGUGUAUCUGUUUCCAUCAGUUGCAAAUGUAUC
....(((((((.((.(((.(.((((((((((.(((((((((...))))))))).(((..((((........))))..)))..)))).)))))).).))).)))))))))..... ( -32.80)
>DroSec_CAF1 12519 114 - 1
ACAAAUUUGUAUACGGAUUGCAAUAGAACGCGGUUGCCAAUCAAAUUGGCGGCAGCUCUUGGAACAUUAUGAGCACUGGUCAGUGUAUCUGUUUCCAUCAGCUGCAACUGUAUC
...((((((....))))))..........((((((((((((...)))))).((((((..(((((.((...(((((((....))))).)).)))))))..))))))))))))... ( -35.80)
>DroSim_CAF1 11989 114 - 1
ACAAAUUUGUAUACGGAUUGCAAUAGAACGCGGUUGCCAAUCAAAUUGGCGGCAGCUCUUGCAACAUUAUGAGCACUGGCCAGUGUAUCUGUUUCCAUCAGCUGCAACUGUAUC
..........((((((.((((((((((((((....((((((...))))))(((.((((............))))....))).)))).)))))..........))))))))))). ( -32.30)
>DroEre_CAF1 13259 114 - 1
ACAAAUUUGUAUACGGAUUGCAAUAGAAGGCGGUUGCCAAUCAAAUUGGCGGCAGCUCUUGCAACAUUAUGAGCACUGGUCAGUGUAUCUUAUUCCAUCAGCUGCAACUGUGUA
.........(((((((.(((((....(((((.(((((((((...))))))))).)).)))((......(((((((((....))))...))))).......)))))))))))))) ( -32.52)
>DroYak_CAF1 12771 113 - 1
ACAAAUUUGUAUACGGAUUGCAAUGGAACGCGGUUGCCAAUCAAAUUGGCGGCAGCUCUUGCAACAUUAUGAGCACUGGUCAGUGUAUCUAUUUCCAUCAGCUG-AACUUAGUC
...((((((....))))))((.((((((.((.(((((((((...))))))))).))................(((((....)))))......))))))..))..-......... ( -27.60)
>consensus
ACAAAUUUGUAUACGGAUUGCAAUAGAACGCGGUUGCCAAUCAAAUUGGCGGCAGCUCUUGCAACAUUAUGAGCACUGGUCAGUGUAUCUGUUUCCAUCAGCUGCAACUGUAUC
..........((((((.((((((((((..((.(((((((((...))))))))).))................(((((....))))).)))))..........))))))))))). (-26.24 = -26.92 +   0.68)

alignment

secondary structure

dotplot

Window 5

Location	18,492,349 – 18,492,442
Length	93
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	98.28
Mean single sequence MFE	-25.04
Consensus MFE	-22.04
Energy contribution	-22.08
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.45
Structure conservation index	0.88
SVM decision value	0.21
SVM RNA-class probability	0.634806
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18492349 93 - 22407834
AAACGAUCCACCGAUCUGGACAAAUUUGUAUACGGAUUGCAAUAGAACGCGGUUGCCAAUCAAAUUGGCGGCAGCUCUUGCAACAUUAUGUGC
........(((.((((((.(((....)))...))))))(((..(((..((.(((((((((...))))))))).))))))))........))). ( -24.40)
>DroSec_CAF1 12559 93 - 1
AAACGAUCCACCGAUCUGGACAAAUUUGUAUACGGAUUGCAAUAGAACGCGGUUGCCAAUCAAAUUGGCGGCAGCUCUUGGAACAUUAUGAGC
....(.((((.(((((((.(((....)))...))))))).........((.(((((((((...))))))))).))...)))).)......... ( -26.00)
>DroSim_CAF1 12029 93 - 1
AAACGAUCCACCGAUCUGGACAAAUUUGUAUACGGAUUGCAAUAGAACGCGGUUGCCAAUCAAAUUGGCGGCAGCUCUUGCAACAUUAUGAGC
............((((((.(((....)))...))))))(((..(((..((.(((((((((...))))))))).))))))))............ ( -23.20)
>DroEre_CAF1 13299 93 - 1
AAACGAUCCACCGAUCUGGACAAAUUUGUAUACGGAUUGCAAUAGAAGGCGGUUGCCAAUCAAAUUGGCGGCAGCUCUUGCAACAUUAUGAGC
............((((((.(((....)))...))))))((((.....(((.(((((((((...))))))))).))).))))............ ( -23.40)
>DroYak_CAF1 12810 93 - 1
AAACGAUCCACCGAUCUGGACAAAUUUGUAUACGGAUUGCAAUGGAACGCGGUUGCCAAUCAAAUUGGCGGCAGCUCUUGCAACAUUAUGAGC
...((.((((.(((((((.(((....)))...)))))))...)))).))..(((((((((...))))))))).((((............)))) ( -28.20)
>consensus
AAACGAUCCACCGAUCUGGACAAAUUUGUAUACGGAUUGCAAUAGAACGCGGUUGCCAAUCAAAUUGGCGGCAGCUCUUGCAACAUUAUGAGC
............((((((.(((....)))...))))))(((..(((..((.(((((((((...))))))))).))))))))............ (-22.04 = -22.08 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:30 2006