Locus 2565

Sequence ID 3R_DroMel_CAF1
Location 6,940,091 – 6,940,285
Length 194
Max. P 0.929457
window4189 window4190

overview

Window 9

Location 6,940,091 – 6,940,205
Length 114
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 93.82
Mean single sequence MFE -33.20
Consensus MFE -33.34
Energy contribution -33.23
Covariance contribution -0.11
Combinations/Pair 1.05
Mean z-score -1.86
Structure conservation index 1.00
SVM decision value 1.20
SVM RNA-class probability 0.929457
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6940091 114 - 27905053
CUUCGGCCACGCCAACUUCAAGUCAAAGAUGGUAAUUAGAGUCCAUGGAAAACUUGGCCAGGCCUCUGAGAAAAUAUGAAUAUGUGCUGAGAUGUAUGUGUA------UGCAUAUGCAUG
.((((((.((((((.(((.......))).))))..((((((.((.(((.........))))).))))))..............))))))))(((((((((..------..))))))))). ( -33.00)
>DroSim_CAF1 90049 120 - 1
CUUCGGCCACGCCAACUUGAAGUCAAAGAUGGUAAUUAGAGUCCAUGGAAAACUUGGCCAGGCCUCUGAGAAAAUAUGAAUAUGUGCUGAGGUGAAUGUGUACGCAUAUGCAUAUGCAUA
(((((((.((((((.(((.......))).))))..((((((.((.(((.........))))).))))))..............)))))))))...(((((((.((....)).))))))). ( -34.10)
>DroYak_CAF1 90775 116 - 1
CUUCGGCCACGCCAACUUCAAGUCAAAGAUGGUAAUUAGAGUCCAUGGAAAACUUGGCCAGGCUUCUGAGAAAAUAUGAAUAUGUGCUGAGGUGUAUGUGUA----UAUGCAUAUGCAUA
(((((((.((((((.(((.......))).))))..((((((.((.(((.........))))).))))))..............)))))))))(((((((((.----...))))))))).. ( -32.50)
>consensus
CUUCGGCCACGCCAACUUCAAGUCAAAGAUGGUAAUUAGAGUCCAUGGAAAACUUGGCCAGGCCUCUGAGAAAAUAUGAAUAUGUGCUGAGGUGUAUGUGUA____UAUGCAUAUGCAUA
.((((((.((((((.(((.......))).))))..((((((.((.(((.........))))).))))))..............))))))))(((((((((((......))))))))))). (-33.34 = -33.23 +  -0.11)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 0

Location 6,940,165 – 6,940,285
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 93.89
Mean single sequence MFE -30.27
Consensus MFE -26.95
Energy contribution -27.40
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -1.95
Structure conservation index 0.89
SVM decision value 0.32
SVM RNA-class probability 0.687030
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6940165 120 - 27905053
AUUCUGCACUCAAAUUGCAUUUUAAAGUAGGCAACAGCAAUCAAGGGAUGUAUUAAGAAAUUAACCCAGGCAGAAAGUUGCUUCGGCCACGCCAACUUCAAGUCAAAGAUGGUAAUUAGA
.((((((.(((..((((((((....))).(....).)))))...))).((..((((....))))..)).)))))).((.((....)).))((((.(((.......))).))))....... ( -26.90)
>DroSim_CAF1 90129 120 - 1
AUUCUGCACUCAAAUUGCAUUCUAAAGUAGGCAGCAGCAAUCAAGGGCUGUAUUAAGAAAUUAAGCCAGGCAGAAAGUUGCUUCGGCCACGCCAACUUGAAGUCAAAGAUGGUAAUUAGA
.((((((........(((........)))(((.(((((........))))).((((....)))))))..)))))).((.((....)).))((((.(((.......))).))))....... ( -33.40)
>DroYak_CAF1 90851 120 - 1
AUACUGCACUUAAAUUGCAAUCUUAAGUAGGCAACAGCAAUCGAGGGCUGUAUUAAGAAAUUAACCCAGGCAGAAUGUUGCUUCGGCCACGCCAACUUCAAGUCAAAGAUGGUAAUUAGA
............((((((.(((((((((.(((...((((.((...(.(((..((((....))))..))).).)).))))((....))...))).)))).......))))).))))))... ( -30.51)
>consensus
AUUCUGCACUCAAAUUGCAUUCUAAAGUAGGCAACAGCAAUCAAGGGCUGUAUUAAGAAAUUAACCCAGGCAGAAAGUUGCUUCGGCCACGCCAACUUCAAGUCAAAGAUGGUAAUUAGA
....((((.......)))).(((((.((.(((...((((((....(.(((..((((....))))..))).).....))))))...)))))((((.(((.......))).))))..))))) (-26.95 = -27.40 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:30 2006