Locus 831

Sequence ID 3L_DroMel_CAF1
Location 2,530,754 – 2,530,856
Length 102
Max. P 0.661772
window1276 window1277

overview

Window 6

Location 2,530,754 – 2,530,856
Length 102
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 89.95
Mean single sequence MFE -25.43
Consensus MFE -19.52
Energy contribution -19.90
Covariance contribution 0.38
Combinations/Pair 1.04
Mean z-score -1.69
Structure conservation index 0.77
SVM decision value 0.27
SVM RNA-class probability 0.661772
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2530754 102 + 23771897
CUGGGAAU--------AUAUGGAAAGCAGCAAAUCCAGCAAAUCCGCUUAGAGUGCAAAAAGGCAAAGCUGUUGCAAUUGCCAAGUUGGCUGGAUAGUAAACUACUCAUU
.((((...--------.................((((((.....(((.....)))(((...(((((.((....))..)))))...)))))))))(((....))))))).. ( -23.60)
>DroSec_CAF1 153602 99 + 1
CUGGGAAU--------AUAUGGAAAC---CAAAUCCAGCAAAUCCGCUUAGAGUGCAAAAAGGCAAAGCUGUUGCAAUUACCAAGUUGGCUGGAUAGUAAACUACUCAGC
(((((...--------....(....)---...(((((((......((((.(..(((((...(((...))).)))))....).))))..))))))).........))))). ( -25.00)
>DroSim_CAF1 151160 99 + 1
CUGGGAAU--------AUAUGGAAAG---CAAAUCCAGCAAAUCCGCUUAGAGUGCAAAAAGGCAAAGCUGUUGCAAUUGCCAAGUUGGCUGGAUAGUAAACUACUCAGU
(((((...--------..........---....((((((.....(((.....)))(((...(((((.((....))..)))))...)))))))))(((....)))))))). ( -26.10)
>DroYak_CAF1 153691 107 + 1
CUGGGAAUAUGUAUAUAUAUGCAAAG---CAAAUGCAACAAAUCCGCUUAGAGUGCAAAAAGGCAAAGCUGUGGCAAUUGCCAAGCUGGCUGGAGAGUAAACUACUCAGU
(((((....(((((....)))))..(---(....)).((...(((((.......)).....(((..((((.((((....)))))))).))))))..))......))))). ( -27.00)
>consensus
CUGGGAAU________AUAUGGAAAG___CAAAUCCAGCAAAUCCGCUUAGAGUGCAAAAAGGCAAAGCUGUUGCAAUUGCCAAGUUGGCUGGAUAGUAAACUACUCAGU
(((((..............((((..........))))....((((((.(((..(((......)))...)))..))....(((.....))).)))).........))))). (-19.52 = -19.90 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 2,530,754 – 2,530,856
Length 102
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 89.95
Mean single sequence MFE -24.64
Consensus MFE -18.27
Energy contribution -18.40
Covariance contribution 0.13
Combinations/Pair 1.08
Mean z-score -1.80
Structure conservation index 0.74
SVM decision value 0.27
SVM RNA-class probability 0.660960
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2530754 102 - 23771897
AAUGAGUAGUUUACUAUCCAGCCAACUUGGCAAUUGCAACAGCUUUGCCUUUUUGCACUCUAAGCGGAUUUGCUGGAUUUGCUGCUUUCCAUAU--------AUUCCCAG
...(((((((.....(((((((......(((((..((....)).)))))..(((((.......)))))...)))))))..))))))).......--------........ ( -28.90)
>DroSec_CAF1 153602 99 - 1
GCUGAGUAGUUUACUAUCCAGCCAACUUGGUAAUUGCAACAGCUUUGCCUUUUUGCACUCUAAGCGGAUUUGCUGGAUUUG---GUUUCCAUAU--------AUUCCCAG
...(((((....((((((((((......(((((..((....)).)))))..(((((.......)))))...)))))))..)---)).......)--------)))).... ( -22.60)
>DroSim_CAF1 151160 99 - 1
ACUGAGUAGUUUACUAUCCAGCCAACUUGGCAAUUGCAACAGCUUUGCCUUUUUGCACUCUAAGCGGAUUUGCUGGAUUUG---CUUUCCAUAU--------AUUCCCAG
...(((.(((.....(((((((......(((((..((....)).)))))..(((((.......)))))...)))))))..)---))))).....--------........ ( -23.50)
>DroYak_CAF1 153691 107 - 1
ACUGAGUAGUUUACUCUCCAGCCAGCUUGGCAAUUGCCACAGCUUUGCCUUUUUGCACUCUAAGCGGAUUUGUUGCAUUUG---CUUUGCAUAUAUAUACAUAUUCCCAG
...(((((...)))))........((..(((((.(((.((((.(((((...............))))).)))).))).)))---))..)).................... ( -23.56)
>consensus
ACUGAGUAGUUUACUAUCCAGCCAACUUGGCAAUUGCAACAGCUUUGCCUUUUUGCACUCUAAGCGGAUUUGCUGGAUUUG___CUUUCCAUAU________AUUCCCAG
.(((((((...)))).((((((......(((((..((....)).)))))..(((((.......)))))...))))))..............................))) (-18.27 = -18.40 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:14 2006