Locus 534

Sequence ID X_DroMel_CAF1
Location 1,527,095 – 1,527,191
Length 96
Max. P 0.791337
window841 window842

overview

Window 1

Location 1,527,095 – 1,527,191
Length 96
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 83.51
Mean single sequence MFE -26.82
Consensus MFE -16.21
Energy contribution -18.02
Covariance contribution 1.81
Combinations/Pair 1.05
Mean z-score -1.82
Structure conservation index 0.60
SVM decision value -0.02
SVM RNA-class probability 0.521383
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1527095 96 + 22224390
AGGCUCGCCAUCAUCACCAUGCCCAUCCCCAUGCGCCGCUGAAGGAAGAUGAGCAGGGAACAGCAAUACCUGCUCCCAUCCUAACAACUGAUAACG
.((....))(((((((.(..((.(((....))).)).).)))((((.(..(((((((...........))))))).).))))......)))).... ( -22.30)
>DroSec_CAF1 125 96 + 1
AGGCUCACCAUCAUCACCAUGCCCAUCCCCAUGCGCCGCUGGAGGAAGAUGAGCAGGGAACAGCCAUACCUGCUCCCAUCCUAACAGCCGAUCAUG
.(((................)))......((((..(.((((.((((.(..(((((((...........))))))).).))))..)))).)..)))) ( -27.79)
>DroEre_CAF1 119 84 + 1
AGCCUCACCACCA------------UCCCCAUGCGUCACUGGAGGAUGGUGAGCAGGGAACAGUCAUACCUGCUCCCAUCCUUACUGCCGAUCAUG
.............------------....((((((.((...((((((((.(((((((...........)))))))))))))))..)).))..)))) ( -30.60)
>DroYak_CAF1 1 96 + 1
AGCCUCACCACCAUCACCGCGCCCAUCCCCAUGCGCCACUGGAGGAAGAUGAGCAGGGAACAGCCAUUCCUGCUCCCAUCCUUACAGCCGAUCAUG
............(((...((((..........))))..((((((((.(..(((((((((.......))))))))).).))))).)))..))).... ( -26.60)
>consensus
AGCCUCACCACCAUCACCAUGCCCAUCCCCAUGCGCCACUGGAGGAAGAUGAGCAGGGAACAGCCAUACCUGCUCCCAUCCUAACAGCCGAUCAUG
.............................((((..(.(((((((((....(((((((...........)))))))...))))).)))).)..)))) (-16.21 = -18.02 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 1,527,095 – 1,527,191
Length 96
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 83.51
Mean single sequence MFE -36.85
Consensus MFE -28.74
Energy contribution -28.55
Covariance contribution -0.19
Combinations/Pair 1.21
Mean z-score -1.79
Structure conservation index 0.78
SVM decision value 0.59
SVM RNA-class probability 0.791337
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1527095 96 - 22224390
CGUUAUCAGUUGUUAGGAUGGGAGCAGGUAUUGCUGUUCCCUGCUCAUCUUCCUUCAGCGGCGCAUGGGGAUGGGCAUGGUGAUGAUGGCGAGCCU
((((((((.(..(((....((((((((......))))))))(((((((((.((....((...))..))))))))))))))..)))))))))..... ( -37.30)
>DroSec_CAF1 125 96 - 1
CAUGAUCGGCUGUUAGGAUGGGAGCAGGUAUGGCUGUUCCCUGCUCAUCUUCCUCCAGCGGCGCAUGGGGAUGGGCAUGGUGAUGAUGGUGAGCCU
.......((((........((((((((......)))))))).((.((((.((..(((...((.(((....))).)).))).)).)))))).)))). ( -35.50)
>DroEre_CAF1 119 84 - 1
CAUGAUCGGCAGUAAGGAUGGGAGCAGGUAUGACUGUUCCCUGCUCACCAUCCUCCAGUGACGCAUGGGGA------------UGGUGGUGAGGCU
.......(((.........((((((((......))))))))..((((((((((((((........))))).------------.)))))))))))) ( -37.20)
>DroYak_CAF1 1 96 - 1
CAUGAUCGGCUGUAAGGAUGGGAGCAGGAAUGGCUGUUCCCUGCUCAUCUUCCUCCAGUGGCGCAUGGGGAUGGGCGCGGUGAUGGUGGUGAGGCU
(((.((((.((((......((((((((......)))))))).((((((((....(((........))))))))))))))))))).)))........ ( -37.40)
>consensus
CAUGAUCGGCUGUAAGGAUGGGAGCAGGUAUGGCUGUUCCCUGCUCAUCUUCCUCCAGCGGCGCAUGGGGAUGGGCAUGGUGAUGAUGGUGAGCCU
(((.((((((((..((((.(((((((((...........))))))).)).)))).)))).((.(((....))).)).......)))).)))..... (-28.74 = -28.55 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:08 2006