Locus 4301

Sequence ID 3R_DroMel_CAF1
Location 11,420,571 – 11,420,683
Length 112
Max. P 0.977344
window7008

overview

Window 8

Location 11,420,571 – 11,420,683
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.10
Mean single sequence MFE -34.24
Consensus MFE -29.04
Energy contribution -28.88
Covariance contribution -0.16
Combinations/Pair 1.03
Mean z-score -1.95
Structure conservation index 0.85
SVM decision value 1.79
SVM RNA-class probability 0.977344
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11420571 112 - 27905053
AGCGACAAGGCUGCAAACCCAUACAAAGGAGUCGCCAGCAGGAUAAUGGUUGAAUCGCACGGAAUCUAGGCUAAAGCAAUAGAGCAA--------CCGUGGCAACUGGAGGCGACACCAA
(((......)))...............((.((((((..(((....(((((((..((.....)).((((.((....))..)))).)))--------)))).....)))..)))))).)).. ( -32.60)
>DroSec_CAF1 168028 112 - 1
AGCGACAAGGCUGCAAACCCAUACAAAGGAGUCGCCAGCAGGAUAAUGGUUGAAUCGCACGGAAUCUAGGCUAAAGCAAUAGAGCAA--------CCGUGGCAACUGGAGGCGACACCAA
(((......)))...............((.((((((..(((....(((((((..((.....)).((((.((....))..)))).)))--------)))).....)))..)))))).)).. ( -32.60)
>DroSim_CAF1 160905 112 - 1
AGCGACAAGGCUGCAAACCCAUACAAAGGAGUCGCCAGCAGGAUAAUGGUUGAAUCGCACGGAAUCUAGGCUAAAGCAAUAGAGCAA--------CCGUGGCAACUGGAGGCGACACCAA
(((......)))...............((.((((((..(((....(((((((..((.....)).((((.((....))..)))).)))--------)))).....)))..)))))).)).. ( -32.60)
>DroEre_CAF1 156104 120 - 1
AGCGACAAGGCUGCAAGCCCGCACAAAGGAGUCGCCGGCAGGAUAAUGGUUGAAUCGCAUGGAAUCUAGGCUAAAGCAAUAGAGCAAUAGAGCAUCCGUGGCAACUGGAGGCGACACCAA
.(((....(((.....)))))).....((.((((((..((((((.........)))(((((((.((((.(((..(....)..)))..))))...))))).))..)))..)))))).)).. ( -39.40)
>DroYak_CAF1 160259 111 - 1
AGCGACAAGGCUGCAAGGCUACACAAAGGAGUCGCCAGCAGGAUAAUGGUUGAAUCGCACGGAAUCUAGGCUAAAGCAAUAGAGCA---------CCGUGGCAACUGGAGGCGACACCAA
........((((....)))).......((.((((((..((((((.........)))((((((..((((.((....))..))))...---------)))).))..)))..)))))).)).. ( -34.00)
>consensus
AGCGACAAGGCUGCAAACCCAUACAAAGGAGUCGCCAGCAGGAUAAUGGUUGAAUCGCACGGAAUCUAGGCUAAAGCAAUAGAGCAA________CCGUGGCAACUGGAGGCGACACCAA
(((......)))...............((.((((((..((((((.........)))((((((..((((.((....))..))))............)))).))..)))..)))))).)).. (-29.04 = -28.88 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:18 2006