Locus 2426

Sequence ID	X_DroMel_CAF1
Location	6,499,855 – 6,499,950
Length	95
Max. P	0.995578

overview

Window 5

Location	6,499,855 – 6,499,950
Length	95
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	94.09
Mean single sequence MFE	-30.08
Consensus MFE	-24.80
Energy contribution	-24.80
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.67
Structure conservation index	0.82
SVM decision value	2.59
SVM RNA-class probability	0.995578
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6499855 95 + 22224390
GA--UCCAUAAUCUCGAAAAAACCAUCG-AUGGCAUCGAACCGGCUGGAACUGAACCAUCGAUAUUAUCAGUAGCGCCAUCGAUGGUUUGAUAGCACC
..--...............(((((((((-(((((..((...))(((...(((((.............))))))))))))))))))))))......... ( -28.92)
>DroSec_CAF1 53783 95 + 1
GU--CCCAUUGUCUCGAAAAAACCAUCG-AUGGCAUCGAACCGGCUGGAACUGAACCAUCGAUAUUAUCAGUAGUGCCAUCGAUGGUUUGAUAGCACA
..--.....(((((.....(((((((((-(((((((....((....)).(((((.............))))).))))))))))))))))...)).))) ( -30.72)
>DroSim_CAF1 53122 95 + 1
GU--CCCAUAGUCUCGAAAAAACCAUCG-AUGGCAUCGAACCGGCUGGAACUGAACCAUCGAUAUUAUCAGUAGUGCCAUCGAUGGUUUGAUAGCACC
..--...............(((((((((-(((((((....((....)).(((((.............))))).))))))))))))))))......... ( -30.12)
>DroEre_CAF1 53385 98 + 1
GCGACCCAUAGUCUCGAAAAAACCAUCGGAUGGCAUCGAACCGGCUGGAACUGAACCGUCGAUAGUAUCAGUAGCGCCAUCGAUGGUUUGAUAGCACC
(((((.....)))......(((((((((.(((((..((...))(((...(((((..(.......)..))))))))))))))))))))))....))... ( -30.30)
>DroYak_CAF1 53487 96 + 1
GA-CCCCAUAGUCUCGAAAAAACCAUCG-AUGGCAUCGAACCGGCUGGAACUGAACCAUCGAUAUUAUCAGUAGCGCCAUCGAUGGUUUGAUACCACC
((-(......)))......(((((((((-(((((..((...))(((...(((((.............))))))))))))))))))))))......... ( -30.32)
>consensus
GA__CCCAUAGUCUCGAAAAAACCAUCG_AUGGCAUCGAACCGGCUGGAACUGAACCAUCGAUAUUAUCAGUAGCGCCAUCGAUGGUUUGAUAGCACC
...................(((((((((.(((((......((....)).(((((.............)))))...))))))))))))))......... (-24.80 = -24.80 +   0.00)

alignment

secondary structure

dotplot

Window 6

Location	6,499,855 – 6,499,950
Length	95
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	94.09
Mean single sequence MFE	-31.80
Consensus MFE	-26.60
Energy contribution	-26.16
Covariance contribution	-0.44
Combinations/Pair	1.10
Mean z-score	-2.11
Structure conservation index	0.84
SVM decision value	1.94
SVM RNA-class probability	0.983382
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6499855 95 - 22224390
GGUGCUAUCAAACCAUCGAUGGCGCUACUGAUAAUAUCGAUGGUUCAGUUCCAGCCGGUUCGAUGCCAU-CGAUGGUUUUUUCGAGAUUAUGGA--UC
(((((((((........))))))))).((((...((((((((((...(..((....))..)...)))))-)))))......)).))........--.. ( -30.10)
>DroSec_CAF1 53783 95 - 1
UGUGCUAUCAAACCAUCGAUGGCACUACUGAUAAUAUCGAUGGUUCAGUUCCAGCCGGUUCGAUGCCAU-CGAUGGUUUUUUCGAGACAAUGGG--AC
(((.((...((((((((((((((.(....).....((((((((((.......)))))..))))))))))-))))))))).....))))).....--.. ( -31.30)
>DroSim_CAF1 53122 95 - 1
GGUGCUAUCAAACCAUCGAUGGCACUACUGAUAAUAUCGAUGGUUCAGUUCCAGCCGGUUCGAUGCCAU-CGAUGGUUUUUUCGAGACUAUGGG--AC
(((((((((........))))))))).((.(((.((((((((((...(..((....))..)...)))))-)))))(((((...)))))))).))--.. ( -32.90)
>DroEre_CAF1 53385 98 - 1
GGUGCUAUCAAACCAUCGAUGGCGCUACUGAUACUAUCGACGGUUCAGUUCCAGCCGGUUCGAUGCCAUCCGAUGGUUUUUUCGAGACUAUGGGUCGC
(((((((((........))))))))).........((((((((((.......)))))..)))))((.((((.((((((((...)))))))))))).)) ( -30.70)
>DroYak_CAF1 53487 96 - 1
GGUGGUAUCAAACCAUCGAUGGCGCUACUGAUAAUAUCGAUGGUUCAGUUCCAGCCGGUUCGAUGCCAU-CGAUGGUUUUUUCGAGACUAUGGGG-UC
(((((((((.(((((((((((...(....)....)))))))))))..(..((....))..)))))))))-).((((((((...))))))))....-.. ( -34.00)
>consensus
GGUGCUAUCAAACCAUCGAUGGCGCUACUGAUAAUAUCGAUGGUUCAGUUCCAGCCGGUUCGAUGCCAU_CGAUGGUUUUUUCGAGACUAUGGG__AC
(((.((...((((((((((((((.(....).....((((((((((.......)))))..)))))))))).))))))))).....)))))......... (-26.60 = -26.16 +  -0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:11 2006