Locus 8431

Sequence ID X_DroMel_CAF1
Location 20,932,048 – 20,932,184
Length 136
Max. P 0.719375
window13850 window13851

overview

Window 0

Location 20,932,048 – 20,932,147
Length 99
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 88.93
Mean single sequence MFE -31.80
Consensus MFE -23.89
Energy contribution -24.45
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.42
Structure conservation index 0.75
SVM decision value -0.04
SVM RNA-class probability 0.513928
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20932048 99 - 22224390
AUAAGUG----UACGUGGAUGCCUAGUGGCUUGAGUCAGCUACUGGCUUCCACGUGCUACCUUAACACCCGACAUUCACUCCCACUUGAGGCACGCAUGCGAC
.((((.(----((((((((.(((.(((((((......)))))))))).)))))))))...))))..............(((......)))(((....)))... ( -35.90)
>DroSec_CAF1 3843 99 - 1
AUAAGUA----UACGUGAAUGCGAAGUGGCUUGAGUCAGCUACUGGCUUCCACGUGCUACCGUAACACCCGACGUCCACUCCCACUUGAGGCACGCAUGCGAC
.......----..(((..((((...((((...(((((((...)))))))))))((((...(((........)))....(((......)))))))))))))).. ( -26.90)
>DroEre_CAF1 2994 97 - 1
AUAAGUACACAUACGUGGAUGCGAAGUGGCUUGAGUCAGCUACUGGCUUCCACGUGCUACCGCAGCACCCGACGUCCACUCCCACUUGAGGCACGCA------
....((........(((((((((..((((...(((((((...)))))))))))(((((.....))))).)).)))))))..((......))...)).------ ( -30.80)
>DroYak_CAF1 3177 103 - 1
AUAAGUAUACGUACGUGGAUACGAAGUGGCUUGAGUCAGCUACUGGCUUCCACGUGCUACCGCAGCACCCGACGUCCACUCCCACUUGAGGCACGCAUGCGAC
..........(((((((((..(..(((((((......))))))).)..)))))))))...((((((.(((((.((........))))).))...)).)))).. ( -33.60)
>consensus
AUAAGUA____UACGUGGAUGCGAAGUGGCUUGAGUCAGCUACUGGCUUCCACGUGCUACCGCAACACCCGACGUCCACUCCCACUUGAGGCACGCAUGCGAC
....(((....((((((((.((..(((((((......))))))).)).)))))))).)))..........(.(((.(.(((......)))).))))....... (-23.89 = -24.45 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 20,932,087 – 20,932,184
Length 97
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 91.45
Mean single sequence MFE -29.32
Consensus MFE -23.63
Energy contribution -23.94
Covariance contribution 0.31
Combinations/Pair 1.04
Mean z-score -1.75
Structure conservation index 0.81
SVM decision value 0.40
SVM RNA-class probability 0.719375
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20932087 97 - 22224390
CCAUUAAGCCCAAGCCAUUAUUAUAA--ACUGCUCCGGAAUAAGUG----UACGUGGAUGCCUAGUGGCUUGAGUCAGCUACUGGCUUCCACGUGCUACCUUA
...(((..((..(((..((......)--)..)))..))..)))(((----((((((((.(((.(((((((......)))))))))).))))))))).)).... ( -34.40)
>DroSec_CAF1 3882 99 - 1
CCAUUAAGCCCAAGCCAUUAUUAUAGACACUGCUCCGGAAUAAGUA----UACGUGAAUGCGAAGUGGCUUGAGUCAGCUACUGGCUUCCACGUGCUACCGUA
...(((..((..(((................)))..))..)))(((----((((((...((..(((((((......))))))).))...)))))).))).... ( -22.99)
>DroEre_CAF1 3027 101 - 1
CCAUUAAGCCCAAGCCAUUAUUAUAG--ACUGCUCCGGAAUAAGUACACAUACGUGGAUGCGAAGUGGCUUGAGUCAGCUACUGGCUUCCACGUGCUACCGCA
.......((((.(((..((......)--)..)))..))............((((((((.((..(((((((......))))))).)).)))))))).....)). ( -28.30)
>DroYak_CAF1 3216 101 - 1
CCAUUAAGCCGAAGCCAUUAUUAUAG--ACUGCUCCGGAAUAAGUAUACGUACGUGGAUACGAAGUGGCUUGAGUCAGCUACUGGCUUCCACGUGCUACCGCA
...(((..(((.(((..((......)--)..))).)))..)))......(((((((((..(..(((((((......))))))).)..)))))))))....... ( -31.60)
>consensus
CCAUUAAGCCCAAGCCAUUAUUAUAG__ACUGCUCCGGAAUAAGUA____UACGUGGAUGCGAAGUGGCUUGAGUCAGCUACUGGCUUCCACGUGCUACCGCA
...(((..((..(((................)))..))..)))(((....((((((((.((..(((((((......))))))).)).)))))))).))).... (-23.63 = -23.94 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:50 2006