Locus 599

Sequence ID X_DroMel_CAF1
Location 1,671,052 – 1,671,151
Length 99
Max. P 0.860686
window971 window972

overview

Window 1

Location 1,671,052 – 1,671,151
Length 99
Sequences 3
Columns 99
Reading direction forward
Mean pairwise identity 95.24
Mean single sequence MFE -42.50
Consensus MFE -37.53
Energy contribution -38.20
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.44
Structure conservation index 0.88
SVM decision value 0.83
SVM RNA-class probability 0.860686
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1671052 99 + 22224390
CUGGCACAUGUCCUGCCCACGUGCACGUGUCCUGCCCGGGACACAUGCCUGGGCAUGUGUGUGUGUGUGUGAGCAGCUCGAGAGCAGGACUUUGCAGAU
...(((...(((((((.((((..((((..(.(((((((((.(....))))))))).).)..))))..)))).)).(((....))))))))..))).... ( -47.50)
>DroSec_CAF1 5118 96 + 1
CUGGCACAUGUCCUGCCCACGUGCACGUGUCCUACCC---ACUCAGGCCUGGGCAUAUGUGUGUGUGUGUGAGCAGCUCGAGAGCAGGACUUUGCAGAU
...(((...(((((((.((((..(((((((((((.((---.....))..)))).)))))))..))))..((((...))))...)))))))..))).... ( -38.00)
>DroSim_CAF1 5968 96 + 1
CUGGCACAUGUCCUGCCCACGUGCACGUGUCCUACCC---ACUCAGGCCUGGGCAUGUGUGUGUGUGUGUGAGCAGCUCGAGAGCAGGACUUUGCAGAU
...(((...(((((((.((((..(((((((((...((---.....))...)))))))))..))))....((((...))))...)))))))..))).... ( -42.00)
>consensus
CUGGCACAUGUCCUGCCCACGUGCACGUGUCCUACCC___ACUCAGGCCUGGGCAUGUGUGUGUGUGUGUGAGCAGCUCGAGAGCAGGACUUUGCAGAU
...(((...(((((((.((((..(((((((((...((........))...)))))))))..))))....((((...))))...)))))))..))).... (-37.53 = -38.20 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 1,671,052 – 1,671,151
Length 99
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 95.24
Mean single sequence MFE -36.13
Consensus MFE -32.12
Energy contribution -31.90
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.74
Structure conservation index 0.89
SVM decision value -0.04
SVM RNA-class probability 0.515097
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1671052 99 - 22224390
AUCUGCAAAGUCCUGCUCUCGAGCUGCUCACACACACACACACAUGCCCAGGCAUGUGUCCCGGGCAGGACACGUGCACGUGGGCAGGACAUGUGCCAG
.........(((((((((..(((...)))..........((((((((....))))))))...)))))))))..(.(((((((.......)))))))).. ( -41.70)
>DroSec_CAF1 5118 96 - 1
AUCUGCAAAGUCCUGCUCUCGAGCUGCUCACACACACACACAUAUGCCCAGGCCUGAGU---GGGUAGGACACGUGCACGUGGGCAGGACAUGUGCCAG
....(((..((((((((......((((((((.((...........((....)).)).))---))))))..((((....))))))))))))...)))... ( -33.20)
>DroSim_CAF1 5968 96 - 1
AUCUGCAAAGUCCUGCUCUCGAGCUGCUCACACACACACACACAUGCCCAGGCCUGAGU---GGGUAGGACACGUGCACGUGGGCAGGACAUGUGCCAG
....(((..(((((((((.((.((.((.....(((...(((.((.((....)).)).))---).)).).....)))).)).)))))))))...)))... ( -33.50)
>consensus
AUCUGCAAAGUCCUGCUCUCGAGCUGCUCACACACACACACACAUGCCCAGGCCUGAGU___GGGUAGGACACGUGCACGUGGGCAGGACAUGUGCCAG
....(((..(((((((((.((.((.((.................(((((..((....))...)))))(....))))).)).)))))))))...)))... (-32.12 = -31.90 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:07 2006