Locus 7918

Sequence ID X_DroMel_CAF1
Location 19,709,567 – 19,709,657
Length 90
Max. P 0.575356
window12993 window12994

overview

Window 3

Location 19,709,567 – 19,709,657
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 89.70
Mean single sequence MFE -28.18
Consensus MFE -24.49
Energy contribution -23.80
Covariance contribution -0.69
Combinations/Pair 1.17
Mean z-score -1.36
Structure conservation index 0.87
SVM decision value 0.03
SVM RNA-class probability 0.547445
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19709567 90 + 22224390
UUUGGCUCCUCGGACGGUUCUCCUUGCUUCUCCUUGUGCCUUUUUUUAUUGCGCCACACGGACGGAAUGGACCUCACCGGACAGCCGCCG
...(((..((.(..((((..(((...((..(((.((((((..........).).)))).))).))...)))....))))..)))..))). ( -23.50)
>DroSec_CAF1 5641 88 + 1
UUUGGCUCCUCGGACGGUUCUCCUUGCUUCUCCUUGUGCCUUU--UUAUUCCGCCACCCGGACGGAAUGGACCGCACCGGACAGCCGCCG
...(((.....(((......)))..(((..(((..((((...(--((((((((((....)).)))))))))..)))).))).))).))). ( -30.10)
>DroEre_CAF1 3067 88 + 1
UUUGGCUUCUCGGACGGUUUUCCUUGCUUCUCCUUGCGCUUUU--UUAUUCCGCCACCCGGACGGAGUGGACCACACCGGACAGCCACCG
..(((((((.(((..((((......((........))......--.(((((((((....)).)))))))))))...))))).)))))... ( -27.60)
>DroYak_CAF1 2819 88 + 1
UUUGGCUUCUCGGAUGGUUCUCCUUGGUACUCGUUGCUCCUUU--UUAUUCCGCCACCCGGACGGAAUGGACCGUACCGGACAGCCGCCG
...((((((.((((((((((.....((..(.....)..))...--..((((((((....)).))))))))))))).))))).)))).... ( -31.50)
>consensus
UUUGGCUCCUCGGACGGUUCUCCUUGCUUCUCCUUGCGCCUUU__UUAUUCCGCCACCCGGACGGAAUGGACCGCACCGGACAGCCGCCG
..(((((..((((..(((((.....((..........))........((((((((....)).)))))))))))...))))..)))))... (-24.49 = -23.80 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 19,709,567 – 19,709,657
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 89.70
Mean single sequence MFE -29.95
Consensus MFE -25.30
Energy contribution -25.30
Covariance contribution 0.00
Combinations/Pair 1.18
Mean z-score -1.42
Structure conservation index 0.84
SVM decision value 0.08
SVM RNA-class probability 0.575356
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19709567 90 - 22224390
CGGCGGCUGUCCGGUGAGGUCCAUUCCGUCCGUGUGGCGCAAUAAAAAAAGGCACAAGGAGAAGCAAGGAGAACCGUCCGAGGAGCCAAA
....((((.(.(((...(((...((((.(((.((((.(............).)))).))).......)))).)))..))).).))))... ( -26.70)
>DroSec_CAF1 5641 88 - 1
CGGCGGCUGUCCGGUGCGGUCCAUUCCGUCCGGGUGGCGGAAUAA--AAAGGCACAAGGAGAAGCAAGGAGAACCGUCCGAGGAGCCAAA
.(((.((..(((((.((((......)))))))))..))(((....--....((..........))..((....)).))).....)))... ( -31.10)
>DroEre_CAF1 3067 88 - 1
CGGUGGCUGUCCGGUGUGGUCCACUCCGUCCGGGUGGCGGAAUAA--AAAAGCGCAAGGAGAAGCAAGGAAAACCGUCCGAGAAGCCAAA
...(((((.(((((.((..(((..((((((.....))))))....--......((........))..)))..))...))).))))))).. ( -27.80)
>DroYak_CAF1 2819 88 - 1
CGGCGGCUGUCCGGUACGGUCCAUUCCGUCCGGGUGGCGGAAUAA--AAAGGAGCAACGAGUACCAAGGAGAACCAUCCGAGAAGCCAAA
.(((.((..(((((.((((......)))))))))..))(((....--...((.((.....)).))..((....)).))).....)))... ( -34.20)
>consensus
CGGCGGCUGUCCGGUGCGGUCCAUUCCGUCCGGGUGGCGGAAUAA__AAAGGCACAAGGAGAAGCAAGGAGAACCGUCCGAGAAGCCAAA
.(((.((..(((((.((((......)))))))))..)).............................(((......))).....)))... (-25.30 = -25.30 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:49 2006