Locus 1716

Sequence ID 2L_DroMel_CAF1
Location 4,718,704 – 4,718,797
Length 93
Max. P 0.642781
window2751

overview

Window 1

Location 4,718,704 – 4,718,797
Length 93
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 76.86
Mean single sequence MFE -22.22
Consensus MFE -7.93
Energy contribution -9.93
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -2.39
Structure conservation index 0.36
SVM decision value 0.23
SVM RNA-class probability 0.642781
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4718704 93 + 22407834
UGCAGCGAAUUUAC--------AACGCACCCGCGA--------CCAACCGUGGGAACAAGCAAACAAUAUCUGCAGUGCCAUGAAAAUGCCAUCAGCGCAGAAUAAGCA
(((.(((.......--------..))).((((((.--------.....)))))).....))).......(((((.(((.(((....))).)))....)))))....... ( -26.30)
>DroPse_CAF1 172466 91 + 1
UGCAGCGAAUUUAU--------GGCCAUCUCCUCC--------CCAUCCCCAUCAACAAACAA--AAUUUCUGCAGUGCCAGGCAAAUGCCAUCACCGCAGAAUAAGCU
...(((((....((--------((...........--------)))).....)).........--...((((((.(((...(((....)))..))).))))))...))) ( -19.00)
>DroEre_CAF1 154735 90 + 1
UGCAGCAAAUUUAC--------AACGCACCCGCGC--------CCAACCGUGGGAACAAACAA---AUAUCUGCAGUGCCAUGAAAAUGCCAUCAGAGCAGAAUAAGCA
..............--------...((.((((((.--------.....)))))).........---...(((((.(((.(((....))).)))....)))))....)). ( -22.70)
>DroYak_CAF1 153369 90 + 1
UGCAGUAAAUUUAC--------AACGCACCCGCGC--------CCAACCGUGGGAACAAACAA---AUAUCUGCAGUGCCAUGAAAAUGCCAUCAGCGCAGAAUAAGCA
....(((....)))--------...((.((((((.--------.....)))))).........---...(((((.(((.(((....))).)))....)))))....)). ( -22.80)
>DroAna_CAF1 164238 106 + 1
UGCAGCGAAUUUAUGGGCCCUCUCCGCAUCUGCAACAGCCGCACAAGCCAUGGAAACAAACAA---AUUUCUGCAGUGCCAUGAAAAUGCCAUCAACGCAGAAUAAGCA
(((.((........(((.....)))((....))....)).)))...((..((....)).....---..((((((.(((.(((....))).)))....))))))...)). ( -23.50)
>DroPer_CAF1 169844 91 + 1
UGCAGCGAAUUUAU--------GGCCAUCUCCUCC--------CCAUCCCCAUCAACAAACAA--AAUUUCUGCAGUGCCAGGCAAAUGCCAUCACCGCAGAAUAAGCU
...(((((....((--------((...........--------)))).....)).........--...((((((.(((...(((....)))..))).))))))...))) ( -19.00)
>consensus
UGCAGCGAAUUUAC________AACGCACCCGCGC________CCAACCGUGGGAACAAACAA___AUAUCUGCAGUGCCAUGAAAAUGCCAUCAGCGCAGAAUAAGCA
.((......................((....))....................................(((((.(((.(((....))).)))....)))))....)). ( -7.93 =  -9.93 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:16 2006