Locus 6186

Sequence ID 2R_DroMel_CAF1
Location 19,472,493 – 19,472,653
Length 160
Max. P 0.813584
window9906 window9907

overview

Window 6

Location 19,472,493 – 19,472,613
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.89
Mean single sequence MFE -45.80
Consensus MFE -38.67
Energy contribution -38.23
Covariance contribution -0.44
Combinations/Pair 1.06
Mean z-score -2.03
Structure conservation index 0.84
SVM decision value 0.09
SVM RNA-class probability 0.580928
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19472493 120 + 20766785
CCGUUCUUGAACCGCUUCACCGCCAGCUUCAUCCGCAACUACGCGGAGACGCUGUGCCAAUCCUACGGGAGCCACUGUCCCGUGGUUGGGAAGACCUUGGUAUCCGGCGAGAAGAAACUU
...((((((..(((((((.((((((((.((.(((((......))))))).)))).)).....((((((((.......))))))))..))))))((....))...)))))))))....... ( -45.00)
>DroSim_CAF1 2316 120 + 1
CCGUUCCUGAACCGCUUCACCGCCAGCUUCAUCCGCAACUACGCGGAGACGCUGUGCCAAUCCUACGGGAGCCACUGUCCCGUGGUUGGGAAGACCUUGGUCUCCGGCGAGAAGAAACUU
..............((((.....((((.((.(((((......))))))).))))((((....((((((((.......))))))))...(((.(((....)))))))))).))))...... ( -45.20)
>DroYak_CAF1 1623 120 + 1
CCCUUUCUGAAUCGCUUCACCGCCAGCUUUAUCCGCAACUACGCGGAGACGCUGUGCCAAUCCUACGGGAGCCACUGCCCCGUGGUUGGCAAGACCUUGAGCUCGGGCGAGAAGAAACUU
...(((((...((((((....((((((....(((((......)))))...))))((((((.((.(((((.((....))))))))))))))).........))..))))))..)))))... ( -47.20)
>consensus
CCGUUCCUGAACCGCUUCACCGCCAGCUUCAUCCGCAACUACGCGGAGACGCUGUGCCAAUCCUACGGGAGCCACUGUCCCGUGGUUGGGAAGACCUUGGUCUCCGGCGAGAAGAAACUU
..............((((..(((((((.((.(((((......))))))).)))...((((.((.(((((.((....)))))))))))))................)))).))))...... (-38.67 = -38.23 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 19,472,533 – 19,472,653
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.11
Mean single sequence MFE -50.23
Consensus MFE -44.71
Energy contribution -44.27
Covariance contribution -0.44
Combinations/Pair 1.05
Mean z-score -2.28
Structure conservation index 0.89
SVM decision value 0.66
SVM RNA-class probability 0.813584
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19472533 120 + 20766785
ACGCGGAGACGCUGUGCCAAUCCUACGGGAGCCACUGUCCCGUGGUUGGGAAGACCUUGGUAUCCGGCGAGAAGAAACUUUCACUCGUCGCCGCAAGUGUUACAAGGUCUCACUCGACGG
.(((((.((((.((.((...(((....))))))).)))))))))((((((.((((((((.....(((((((..((.....)).))))))).(....).....))))))))..)))))).. ( -49.80)
>DroSim_CAF1 2356 120 + 1
ACGCGGAGACGCUGUGCCAAUCCUACGGGAGCCACUGUCCCGUGGUUGGGAAGACCUUGGUCUCCGGCGAGAAGAAACUUUCACUCGUCGCCGCAAGUGUUACAAGGUCUCACUCGACGG
.(((((.((((.((.((...(((....))))))).)))))))))((((((.((((((((.....(((((((..((.....)).))))))).(....).....))))))))..)))))).. ( -49.80)
>DroYak_CAF1 1663 120 + 1
ACGCGGAGACGCUGUGCCAAUCCUACGGGAGCCACUGCCCCGUGGUUGGCAAGACCUUGAGCUCGGGCGAGAAGAAACUUUCACUCGUCGCCGCAAGUGUUACAAGGUCUUACUCGACGG
..(((....)))...(((((.((.(((((.((....))))))))))))))(((((((((.(((.((((((..((.........))..))))).).)))....)))))))))......... ( -51.10)
>consensus
ACGCGGAGACGCUGUGCCAAUCCUACGGGAGCCACUGUCCCGUGGUUGGGAAGACCUUGGUCUCCGGCGAGAAGAAACUUUCACUCGUCGCCGCAAGUGUUACAAGGUCUCACUCGACGG
..(((....))).(((((((.((.(((((.((....)))))))))))))..((((((((......((((((..((.....)).))))))(((....).))..)))))))))))....... (-44.71 = -44.27 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:58 2006