Locus 3793

Sequence ID X_DroMel_CAF1
Location 10,033,516 – 10,033,617
Length 101
Max. P 0.703586
window6231 window6232

overview

Window 1

Location 10,033,516 – 10,033,617
Length 101
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 86.14
Mean single sequence MFE -35.60
Consensus MFE -25.12
Energy contribution -25.62
Covariance contribution 0.50
Combinations/Pair 1.13
Mean z-score -1.77
Structure conservation index 0.71
SVM decision value 0.36
SVM RNA-class probability 0.703586
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10033516 101 + 22224390
ACCAUCGGCUAGCCAAGGAAGCUGCUGCCGGAAAAUCGGAAAUCGAAACGGUCCUUGGUGGCGGGACCAAAUUCACUUCCGGCGACGAGCAGCCACAGCUG
.....(((((..(....)..(((((((((((((..(((.....)))...((((((.......))))))........)))))))....))))))...))))) ( -35.60)
>DroSec_CAF1 1726 101 + 1
ACCAUCGGCUAGCCAAGGAAGCUGCCGCCGGAAAAUCGGAAAUGGAAACGGUCCUUGGUGGCGGGACCAAGUUCACUUCCGGCGACGAGCAGCCACAGCUG
.....(((((..(....)..(((((((((((((.....(((..(....)((((((.......))))))...)))..))))))))....)))))...))))) ( -37.00)
>DroSim_CAF1 1592 101 + 1
NNNNNNNNNNNNNNNNNGAAGCUGCCGCCGGAAAAUCGGAAAUGGAAACGGUCCUUGGUGGCGGGACCAAGUUCACUUCCGGCGACGAGCAGCCACAGCUG
....................(((((((((((((.....(((..(....)((((((.......))))))...)))..))))))))....)))))........ ( -33.40)
>DroYak_CAF1 1749 101 + 1
ACCAUCGGCUAGCCAAGGAAACUGUCGCCGGAAAAUCGGAAAUGGAAACGCUUCUUGGUGGCGGAACCAAGUUCACUGCCGGCGACGAGAAGCCACAGCAG
......((((.....((....))((((((((......(((..(((...((((.......))))...)))..)))....))))))))....))))....... ( -36.40)
>consensus
ACCAUCGGCUAGCCAAGGAAGCUGCCGCCGGAAAAUCGGAAAUGGAAACGGUCCUUGGUGGCGGGACCAAGUUCACUUCCGGCGACGAGCAGCCACAGCUG
....................(((((((((((((.....(((..(....)((((((.......))))))...)))..))))))))....)))))........ (-25.12 = -25.62 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 10,033,516 – 10,033,617
Length 101
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 86.14
Mean single sequence MFE -35.78
Consensus MFE -28.93
Energy contribution -29.99
Covariance contribution 1.06
Combinations/Pair 1.10
Mean z-score -1.56
Structure conservation index 0.81
SVM decision value 0.25
SVM RNA-class probability 0.653516
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10033516 101 - 22224390
CAGCUGUGGCUGCUCGUCGCCGGAAGUGAAUUUGGUCCCGCCACCAAGGACCGUUUCGAUUUCCGAUUUUCCGGCAGCAGCUUCCUUGGCUAGCCGAUGGU
.......(((((((.((((.((((((((((..((((((.........)))))).))).)))))))......))))))))))).((((((....)))).)). ( -37.20)
>DroSec_CAF1 1726 101 - 1
CAGCUGUGGCUGCUCGUCGCCGGAAGUGAACUUGGUCCCGCCACCAAGGACCGUUUCCAUUUCCGAUUUUCCGGCGGCAGCUUCCUUGGCUAGCCGAUGGU
((((....)))).(((((((((((((((....((((((.........))))))....)))))))(......))))(((((((.....)))).)))))))). ( -40.10)
>DroSim_CAF1 1592 101 - 1
CAGCUGUGGCUGCUCGUCGCCGGAAGUGAACUUGGUCCCGCCACCAAGGACCGUUUCCAUUUCCGAUUUUCCGGCGGCAGCUUCNNNNNNNNNNNNNNNNN
.......((((((.(((((.((((((((....((((((.........))))))....))))))))......)))))))))))................... ( -34.50)
>DroYak_CAF1 1749 101 - 1
CUGCUGUGGCUUCUCGUCGCCGGCAGUGAACUUGGUUCCGCCACCAAGAAGCGUUUCCAUUUCCGAUUUUCCGGCGACAGUUUCCUUGGCUAGCCGAUGGU
..(((((((((....((((((((..((...((((((......))))))..))...((.......))....))))))))((((.....)))))))).))))) ( -31.30)
>consensus
CAGCUGUGGCUGCUCGUCGCCGGAAGUGAACUUGGUCCCGCCACCAAGGACCGUUUCCAUUUCCGAUUUUCCGGCGGCAGCUUCCUUGGCUAGCCGAUGGU
.((((((.((((........((((((((.(..((((((.........))))))..).))))))))......)))).)))))).((((((....)))).)). (-28.93 = -29.99 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:45 2006