Locus 2958

Sequence ID	2L_DroMel_CAF1
Location	8,495,966 – 8,496,126
Length	160
Max. P	0.969594

overview

Window 3

Location	8,495,966 – 8,496,086
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	91.81
Mean single sequence MFE	-38.67
Consensus MFE	-34.72
Energy contribution	-34.85
Covariance contribution	0.13
Combinations/Pair	1.06
Mean z-score	-1.42
Structure conservation index	0.90
SVM decision value	0.19
SVM RNA-class probability	0.628069
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8495966 120 - 22407834
GUCCAACUCGAUGAAUAUGGCUUACUACGGAGCCAUCUCCAUCGGAACUCCCGCUCAGAGCUUCAAGGUUCUGUUCGACUCAGGCUCCUCGAACCUGUGGGUGCCAUCGAACACCUGCAA
(((....((((((...(((((((......)))))))...))))))......((..(((((((....)))))))..)).....)))..........((..((((........))))..)). ( -37.60)
>DroSec_CAF1 5116 120 - 1
GUCCAACUCGAUGAACAUGGCCUACUACGGAGCCAUCUCCAUUGGAACUCCCGCCCAGAGCUUCAAGGUUCUGUUCGACUCGGGCUCCUCCAAUCUGUGGGUGCCUUCGAACACCUGCCA
........(((((...(((((((.....)).)))))...)))))((((((.......))).)))..(((..(((((((...((((.((..(.....)..)).)))))))))))...))). ( -36.90)
>DroEre_CAF1 4981 120 - 1
GUCCAACUCGAUGAACAUGGCCUACUACGGAGCCAUCAGCAUCGGAACGCCCGCCCAGAGCUUCAAGGUUCUGUUCGAUUCGGGCUCCUCCAACCUGUGGGUGCCCUCGAACACCUGCCA
........(((((...(((((((.....)).)))))...)))))(((.((.(.....).)))))..(((..(((((((...((((.((..(.....)..)).)))))))))))...))). ( -41.80)
>DroYak_CAF1 5360 120 - 1
GUCCAACUCGAUGAACAUGGCCUACUAUGGUGCGAUCAGCAUCGGCACUCCCGCCCAGAGCUUCAAGGUUCUGUUCGACUCGGGCUCCGCCAAUCUGUGGGUGCCAUCGAACACCUGCCA
.......((((((((((..((((.....(((((.....)))))(((......)))..........))))..)))))......((((((((......))))).)))))))).......... ( -38.40)
>consensus
GUCCAACUCGAUGAACAUGGCCUACUACGGAGCCAUCACCAUCGGAACUCCCGCCCAGAGCUUCAAGGUUCUGUUCGACUCGGGCUCCUCCAACCUGUGGGUGCCAUCGAACACCUGCCA
((((...((((((...(((((((.....)).)))))...))))))......((..(((((((....)))))))..))....))))...........(..((((........))))..).. (-34.72 = -34.85 +   0.13)

alignment

secondary structure

dotplot

Window 4

Location	8,496,006 – 8,496,126
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	92.36
Mean single sequence MFE	-45.27
Consensus MFE	-40.44
Energy contribution	-41.75
Covariance contribution	1.31
Combinations/Pair	1.08
Mean z-score	-2.25
Structure conservation index	0.89
SVM decision value	1.64
SVM RNA-class probability	0.969594
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8496006 120 - 22407834
ACCAGCUGCCCUCGCUUCGCAGCGUGGAUGAGGAACAGCUGUCCAACUCGAUGAAUAUGGCUUACUACGGAGCCAUCUCCAUCGGAACUCCCGCUCAGAGCUUCAAGGUUCUGUUCGACU
..((((((.(((((.(((((...))))))))))..))))))......((((((...(((((((......)))))))...))))))......((..(((((((....)))))))..))... ( -44.20)
>DroSec_CAF1 5156 120 - 1
ACCAGCUGCCCUCGCUUCGCAGCGUGGAUGAGGAGCAGCUGUCCAACUCGAUGAACAUGGCCUACUACGGAGCCAUCUCCAUUGGAACUCCCGCCCAGAGCUUCAAGGUUCUGUUCGACU
..((((((((((((.(((((...)))))))))).)))))))......((((((...(((((((.....)).)))))...))))))......((..(((((((....)))))))..))... ( -45.30)
>DroEre_CAF1 5021 120 - 1
ACCAGCUGCCCUCGCUACGCAGCGUGGAUGAGGAGCAGCUGUCCAACUCGAUGAACAUGGCCUACUACGGAGCCAUCAGCAUCGGAACGCCCGCCCAGAGCUUCAAGGUUCUGUUCGAUU
..(((((((((((((((((...))))).))))).)))))))......((((((...(((((((.....)).)))))...))))))......((..(((((((....)))))))..))... ( -50.60)
>DroYak_CAF1 5400 120 - 1
ACCAGCUGCCCAGCCUGCGCAGCGUGGAUGAGGAGCAGCUGUCCAACUCGAUGAACAUGGCCUACUAUGGUGCGAUCAGCAUCGGCACUCCCGCCCAGAGCUUCAAGGUUCUGUUCGACU
..(((((((((..(((((...))).))....)).)))))))..........((((((..((((.....(((((.....)))))(((......)))..........))))..))))))... ( -41.00)
>consensus
ACCAGCUGCCCUCGCUUCGCAGCGUGGAUGAGGAGCAGCUGUCCAACUCGAUGAACAUGGCCUACUACGGAGCCAUCACCAUCGGAACUCCCGCCCAGAGCUUCAAGGUUCUGUUCGACU
..(((((((((((((((((...))))).))))).)))))))......((((((...(((((((.....)).)))))...))))))......((..(((((((....)))))))..))... (-40.44 = -41.75 +   1.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:31 2006