Locus 5005

Sequence ID 3L_DroMel_CAF1
Location 13,760,491 – 13,760,590
Length 99
Max. P 0.966594
window7917 window7918

overview

Window 7

Location 13,760,491 – 13,760,590
Length 99
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 80.30
Mean single sequence MFE -27.68
Consensus MFE -16.18
Energy contribution -19.86
Covariance contribution 3.68
Combinations/Pair 1.04
Mean z-score -2.21
Structure conservation index 0.58
SVM decision value 0.92
SVM RNA-class probability 0.882525
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13760491 99 + 23771897
UAAGUCCCUUACCACCCGAUUCUUGGGCGCAGAGAGCGCAUUGUAGCAAUUACAGCUCUCUUGCCAAAUUUGCAAAUGCAAAUUGAUUUUGCGGAUGGA
...........(((.(((.......((((.(((((((....(((((...)))))))))))))))).(((((((....))))))).......))).))). ( -32.00)
>DroSec_CAF1 7057 99 + 1
UAAGUCCCUUGCCACCCAAUUCUUGGCCGUAGAGAGCGCAUUGUAGCAAUUACAGCUCUCUUGCCAAAUUUGCAAAUGCAAAUUGAUUUUGCGGAUGGA
...........((((((((.((.((((...(((((((....(((((...)))))))))))).))))(((((((....)))))))))..))).)).))). ( -30.20)
>DroSim_CAF1 3627 99 + 1
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNUGUUGCAAUUACAGCUCUCUUGCCAAAUUUGCAAAUGCAAAUGGGUUUUGCGGAGGGA
.......................................................((((((.(((..((((((....)))))).))).....)))))). ( -14.70)
>DroEre_CAF1 6216 99 + 1
UAAGUCCCUUACCACCCAAUUCUUGGGCGCAGGGAGCGCAUUGUAGCAAUUACAGCUCUCUUGCCAAAUUUGCAAAUGCAAAUUGAUUUUGCGGAUGGA
...........((((((((.((...((((.(((((((....(((((...)))))))))))))))).(((((((....)))))))))..))).)).))). ( -30.30)
>DroYak_CAF1 3294 99 + 1
UAAGUCCCUUACCACCCAAUUCUUGGGCGCAGAGAGCGCAUUGUAGCAAUUACAGCUCUCUUGCCAAAUUUGCAAAUGCAAAUUGAUUUUGCGGAUGGA
...........((((((((.((...((((.(((((((....(((((...)))))))))))))))).(((((((....)))))))))..))).)).))). ( -31.20)
>consensus
UAAGUCCCUUACCACCCAAUUCUUGGGCGCAGAGAGCGCAUUGUAGCAAUUACAGCUCUCUUGCCAAAUUUGCAAAUGCAAAUUGAUUUUGCGGAUGGA
...........(((.((........((((.(((((((....(((((...)))))))))))))))).(((((((....)))))))........)).))). (-16.18 = -19.86 +   3.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 13,760,491 – 13,760,590
Length 99
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 80.30
Mean single sequence MFE -28.24
Consensus MFE -17.51
Energy contribution -18.54
Covariance contribution 1.03
Combinations/Pair 1.04
Mean z-score -2.47
Structure conservation index 0.62
SVM decision value 1.60
SVM RNA-class probability 0.966594
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13760491 99 - 23771897
UCCAUCCGCAAAAUCAAUUUGCAUUUGCAAAUUUGGCAAGAGAGCUGUAAUUGCUACAAUGCGCUCUCUGCGCCCAAGAAUCGGGUGGUAAGGGACUUA
.(((((((.......(((((((....))))))).(((.(((((((.(((.(((...)))))))))))))..))).......)))))))........... ( -33.30)
>DroSec_CAF1 7057 99 - 1
UCCAUCCGCAAAAUCAAUUUGCAUUUGCAAAUUUGGCAAGAGAGCUGUAAUUGCUACAAUGCGCUCUCUACGGCCAAGAAUUGGGUGGCAAGGGACUUA
.(((((((((((.....))))).........((((((.(((((((.(((.(((...)))))))))))))...))))))....))))))........... ( -33.00)
>DroSim_CAF1 3627 99 - 1
UCCCUCCGCAAAACCCAUUUGCAUUUGCAAAUUUGGCAAGAGAGCUGUAAUUGCAACANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
.......(((((.....)))))..((((((...((((......))))...))))))........................................... ( -12.20)
>DroEre_CAF1 6216 99 - 1
UCCAUCCGCAAAAUCAAUUUGCAUUUGCAAAUUUGGCAAGAGAGCUGUAAUUGCUACAAUGCGCUCCCUGCGCCCAAGAAUUGGGUGGUAAGGGACUUA
......((((.....(((((((....)))))))((((((...........))))))...)))).(((((.((((((.....))))))...))))).... ( -30.40)
>DroYak_CAF1 3294 99 - 1
UCCAUCCGCAAAAUCAAUUUGCAUUUGCAAAUUUGGCAAGAGAGCUGUAAUUGCUACAAUGCGCUCUCUGCGCCCAAGAAUUGGGUGGUAAGGGACUUA
(((..((((..(((((((((((....))))))).(((.(((((((.(((.(((...)))))))))))))..)))...).)))..))))....))).... ( -32.30)
>consensus
UCCAUCCGCAAAAUCAAUUUGCAUUUGCAAAUUUGGCAAGAGAGCUGUAAUUGCUACAAUGCGCUCUCUGCGCCCAAGAAUUGGGUGGUAAGGGACUUA
.......((((....(((((((....))))))).(((......)))....))))..........(((((.((((((.....))))))...))))).... (-17.51 = -18.54 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:23 2006