Locus 407

Sequence ID 3L_DroMel_CAF1
Location 1,193,167 – 1,193,262
Length 95
Max. P 0.916626
window594 window595

overview

Window 4

Location 1,193,167 – 1,193,262
Length 95
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 98.25
Mean single sequence MFE -26.85
Consensus MFE -25.83
Energy contribution -26.07
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.34
Structure conservation index 0.96
SVM decision value 1.11
SVM RNA-class probability 0.916626
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1193167 95 + 23771897
AAAUGAAAAGGCGACUGUGUGCCGAACUACAGAAAAAUCUGUUCCGGUCUGAUUUAACAAUUGUUAAACAGCUUAUGCAUUGGCCACGGUCUGGA
............(((((((.(((((...(((((....)))))...((.(((.((((((....)))))))))))......)))))))))))).... ( -28.70)
>DroSec_CAF1 8808 95 + 1
AAAUGAAAAAGCGACUGUGUGCCGCACUACAGAAAAAUCUGUUCCGGUCUGAUUUAACAAUUGUUAAACAGCUUAUGCAUUGGCCACGGUCUGGA
............(((((((.((((((..(((((....)))))...((.(((.((((((....)))))))))))..)))...)))))))))).... ( -28.00)
>DroSim_CAF1 8203 95 + 1
AAAUGAAAAAGCGACUGUGUGCCGCACUACAGAAAAAUCUGUUCCGGUCUGAUUUAACAAUUGUUAAACAGCUUAUGCAUUGGCCACGGUCUGGA
............(((((((.((((((..(((((....)))))...((.(((.((((((....)))))))))))..)))...)))))))))).... ( -28.00)
>DroYak_CAF1 8315 95 + 1
AAAUGAAAAAGCGACUGUGUGCCGAACUACAGAAAAAUCUGUUCCGGUCUGAUUUAACAAUUGUUAAACAGCUUAUGCAUUGGCCACGCUCUGGA
............((.((((.(((((...(((((....)))))...((.(((.((((((....)))))))))))......))))))))).)).... ( -22.70)
>consensus
AAAUGAAAAAGCGACUGUGUGCCGAACUACAGAAAAAUCUGUUCCGGUCUGAUUUAACAAUUGUUAAACAGCUUAUGCAUUGGCCACGGUCUGGA
............(((((((.((((....(((((....)))))...((.(((.((((((....))))))))))).......))))))))))).... (-25.83 = -26.07 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 1,193,167 – 1,193,262
Length 95
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 98.25
Mean single sequence MFE -25.85
Consensus MFE -24.12
Energy contribution -24.38
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.32
Structure conservation index 0.93
SVM decision value 0.90
SVM RNA-class probability 0.877297
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1193167 95 - 23771897
UCCAGACCGUGGCCAAUGCAUAAGCUGUUUAACAAUUGUUAAAUCAGACCGGAACAGAUUUUUCUGUAGUUCGGCACACAGUCGCCUUUUCAUUU
....(((.((((((..........(((((((((....)))))).)))...((((((((....)))))..)))))).))).)))............ ( -25.60)
>DroSec_CAF1 8808 95 - 1
UCCAGACCGUGGCCAAUGCAUAAGCUGUUUAACAAUUGUUAAAUCAGACCGGAACAGAUUUUUCUGUAGUGCGGCACACAGUCGCUUUUUCAUUU
....(((.((((((...((((...(((((((((....)))))).)))......(((((....))))).))))))).))).)))............ ( -27.30)
>DroSim_CAF1 8203 95 - 1
UCCAGACCGUGGCCAAUGCAUAAGCUGUUUAACAAUUGUUAAAUCAGACCGGAACAGAUUUUUCUGUAGUGCGGCACACAGUCGCUUUUUCAUUU
....(((.((((((...((((...(((((((((....)))))).)))......(((((....))))).))))))).))).)))............ ( -27.30)
>DroYak_CAF1 8315 95 - 1
UCCAGAGCGUGGCCAAUGCAUAAGCUGUUUAACAAUUGUUAAAUCAGACCGGAACAGAUUUUUCUGUAGUUCGGCACACAGUCGCUUUUUCAUUU
...(((((((((((..........(((((((((....)))))).)))...((((((((....)))))..)))))).)))....)))))....... ( -23.20)
>consensus
UCCAGACCGUGGCCAAUGCAUAAGCUGUUUAACAAUUGUUAAAUCAGACCGGAACAGAUUUUUCUGUAGUGCGGCACACAGUCGCUUUUUCAUUU
....(((.((((((..........(((((((((....)))))).)))......(((((....))))).....))).))).)))............ (-24.12 = -24.38 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:06 2006