Locus 2328

Sequence ID 3L_DroMel_CAF1
Location 6,533,533 – 6,533,626
Length 93
Max. P 0.989496
window3595 window3596

overview

Window 5

Location 6,533,533 – 6,533,626
Length 93
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 92.37
Mean single sequence MFE -28.96
Consensus MFE -26.00
Energy contribution -26.40
Covariance contribution 0.40
Combinations/Pair 1.07
Mean z-score -1.81
Structure conservation index 0.90
SVM decision value 2.17
SVM RNA-class probability 0.989496
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6533533 93 + 23771897
GUUGUCUAGGGCUUCUCCUGUCUUGGAAGUUUUCAGCUUGCAUGACUUCCUCAACCGGGAAGUUUCCAUGCAGAAUUCCUUGUGACGGGGUUC
((((((((((((.......))))))))......)))).(((((((((((((.....)))))))...))))))(((((((.......))))))) ( -30.60)
>DroSec_CAF1 24740 93 + 1
GUUGUCUAGGGCUCCUCCUGUCUUGGAAGUUUUCAGCUAGCAUGACUUCCUCAACCGGGAAGUUUCCAUGCAGAAUUCCUUGUGACGGGGUUC
((((((((((((.......))))))))......))))..((((((((((((.....)))))))...))))).(((((((.......))))))) ( -29.90)
>DroSim_CAF1 25333 93 + 1
GUUGUCUAGGGCUUCUCCUGUCUUGGAAGUUUUUAGCUAGCAUGACUUCCUCAACCGGGAAGUUUCCAUGCAGAAUUCCUUGUGACGGGGCUC
........((((....((((((..((((((.....))).((((((((((((.....)))))))...))))).....)))....)))))))))) ( -29.50)
>DroEre_CAF1 25081 93 + 1
GUUGUCUAGGGCUUCUUCUGUCUUAGAACUUUUUAGCUUGCAUGACUUCCUCAACUGGGAAGUUUCCAUGCAGAAUUCCUUGCGACGGGGUCC
((((((((((((.......))))))))..........((((((((((((((.....)))))))...))))))).........))))....... ( -27.40)
>DroYak_CAF1 25596 93 + 1
CUUGUCUGGGGCUUCUCCUGUCUUAAAACUUUUCAGCUUGCAUGACUUCCUCAACCGGGAAGUUGCCAUGCAGAAUUCCUUGAGACGGGCUUC
((((((((((..(((..(((.............)))..(((((((((((((.....)))))))...)))))))))..)))..))))))).... ( -27.42)
>consensus
GUUGUCUAGGGCUUCUCCUGUCUUGGAAGUUUUCAGCUUGCAUGACUUCCUCAACCGGGAAGUUUCCAUGCAGAAUUCCUUGUGACGGGGUUC
....((((((((.......))))))))............((((((((((((.....)))))))...))))).(((((((.......))))))) (-26.00 = -26.40 +   0.40)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 6

Location 6,533,533 – 6,533,626
Length 93
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 92.37
Mean single sequence MFE -24.32
Consensus MFE -20.40
Energy contribution -20.28
Covariance contribution -0.12
Combinations/Pair 1.12
Mean z-score -1.28
Structure conservation index 0.84
SVM decision value 0.06
SVM RNA-class probability 0.564594
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6533533 93 - 23771897
GAACCCCGUCACAAGGAAUUCUGCAUGGAAACUUCCCGGUUGAGGAAGUCAUGCAAGCUGAAAACUUCCAAGACAGGAGAAGCCCUAGACAAC
.......(((...(((..(((((((((...((((((.......))))))))))))...........(((......))))))..))).)))... ( -23.90)
>DroSec_CAF1 24740 93 - 1
GAACCCCGUCACAAGGAAUUCUGCAUGGAAACUUCCCGGUUGAGGAAGUCAUGCUAGCUGAAAACUUCCAAGACAGGAGGAGCCCUAGACAAC
.......(((...(((......(((((...((((((.......)))))))))))..(((.....(((((......))))))))))).)))... ( -24.10)
>DroSim_CAF1 25333 93 - 1
GAGCCCCGUCACAAGGAAUUCUGCAUGGAAACUUCCCGGUUGAGGAAGUCAUGCUAGCUAAAAACUUCCAAGACAGGAGAAGCCCUAGACAAC
.......(((...(((..(((.(((((...((((((.......)))))))))))............(((......))))))..))).)))... ( -22.60)
>DroEre_CAF1 25081 93 - 1
GGACCCCGUCGCAAGGAAUUCUGCAUGGAAACUUCCCAGUUGAGGAAGUCAUGCAAGCUAAAAAGUUCUAAGACAGAAGAAGCCCUAGACAAC
.......(((...(((..(((((((((...(((((((....).))))))))))))..........((((.....)))))))..))).)))... ( -23.90)
>DroYak_CAF1 25596 93 - 1
GAAGCCCGUCUCAAGGAAUUCUGCAUGGCAACUUCCCGGUUGAGGAAGUCAUGCAAGCUGAAAAGUUUUAAGACAGGAGAAGCCCCAGACAAG
.......((((...((..(((((((((((..((((......))))..)))))))(((((....))))).........))))..)).))))... ( -27.10)
>consensus
GAACCCCGUCACAAGGAAUUCUGCAUGGAAACUUCCCGGUUGAGGAAGUCAUGCAAGCUGAAAACUUCCAAGACAGGAGAAGCCCUAGACAAC
.......(((...(((..(((.(((((...(((((((....).)))))))))))............(((......))))))..))).)))... (-20.40 = -20.28 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:41 2006