Locus 779

Sequence ID 2R_DroMel_CAF1
Location 3,742,810 – 3,743,050
Length 240
Max. P 0.938590
window1364 window1365

overview

Window 4

Location 3,742,810 – 3,742,930
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.22
Mean single sequence MFE -29.26
Consensus MFE -29.59
Energy contribution -29.59
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.02
Structure conservation index 1.01
SVM decision value 1.27
SVM RNA-class probability 0.938590
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3742810 120 + 20766785
UCCCUUUCUCGCCGCUGGGACUGCAUAUUUUAGCAAAAGGUUCCCACGCAGGUCGCUCGCCAGCCCCGCCCCCUCAACCUCCCCCGCUCCCCUGUCUGAACCUUUUGUUUACUUUUGCUU
((((............))))..(((......((((((((((((....(((((..(((....)))...((................))...)))))..))))))))))))......))).. ( -29.59)
>DroSim_CAF1 5496 120 + 1
UCCCUUUCUGGCCGCUGGGACUGCAUAUUUUAGCAAAAGGUUCCCACGCAGGUCGCUCGCCAGCCCCGCCCCCUCAACCUCCCCCGCUCCCCUGUCUGAACCUUUUGUUUACUUUUGCUU
((((............))))..(((......((((((((((((....(((((..(((....)))...((................))...)))))..))))))))))))......))).. ( -29.59)
>DroYak_CAF1 5423 117 + 1
UCCCUUUCUCGCCGCUGGGACUGCAUA---UAGCAAAAGGUUCCCACGCAGGUCGCUCGCCAGCCCCGCCCCCUCGACCUCCCCCGCUCCCCUGUCUGAACCUUUUGUUUACUUUUGCUU
((((............))))..(((..---.((((((((((((....(.((((((...((.......)).....)))))).)...((......))..))))))))))))......))).. ( -28.60)
>consensus
UCCCUUUCUCGCCGCUGGGACUGCAUAUUUUAGCAAAAGGUUCCCACGCAGGUCGCUCGCCAGCCCCGCCCCCUCAACCUCCCCCGCUCCCCUGUCUGAACCUUUUGUUUACUUUUGCUU
((((............))))..(((......((((((((((((....(((((..(((....)))...((................))...)))))..))))))))))))......))).. (-29.59 = -29.59 +  -0.00) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 3,742,930 – 3,743,050
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 99.44
Mean single sequence MFE -27.87
Consensus MFE -27.00
Energy contribution -27.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.07
Structure conservation index 0.97
SVM decision value 0.92
SVM RNA-class probability 0.882218
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3742930 120 + 20766785
UUUUCCCUCAAUGUCUUUCUUAUUUGAUUUUUGGUCCGGCUCUCCUGCAGAAUUCUGCGGCGGCAAAUUUUACUUGAUUUCUGCUUUGUAGUUUCUCACAGCAGGAUCACUCCUUGGAAA
.(((((.((((............))))....((((((.(((....((.((((..(((((((((.(((((......))))))))))..)))).)))))).))).))))))......))))) ( -28.30)
>DroSim_CAF1 5616 120 + 1
UUUUCCCUCAAUGUCUUUCUUAUUUGAUUUUUGGUCCGGCUCUCCUGCAGAAUUCUGCGGCGGCAAAUUUUACUUGAUUUCUGCUUUGUAGUUUCUCACAGCAGGAUCACUCCUUGGAAA
.(((((.((((............))))....((((((.(((....((.((((..(((((((((.(((((......))))))))))..)))).)))))).))).))))))......))))) ( -28.30)
>DroYak_CAF1 5540 120 + 1
UUUUCCCUCAAUGUCUUUCUUAUUUGAUUUUUGGUCCGACUCUCCUGCAGAAUUCUGCGGCGGCAAAUUUUACUUGAUUUCUGCUUUGUAGUUUCUCACAGCAGGAUCACUCCUUGGAAA
.(((((.((((.(((..........)))..))))........((((((((((..(((((((((.(((((......))))))))))..)))).))))....)))))).........))))) ( -27.00)
>consensus
UUUUCCCUCAAUGUCUUUCUUAUUUGAUUUUUGGUCCGGCUCUCCUGCAGAAUUCUGCGGCGGCAAAUUUUACUUGAUUUCUGCUUUGUAGUUUCUCACAGCAGGAUCACUCCUUGGAAA
.(((((.((((.(((..........)))..))))........((((((((((..(((((((((.(((((......))))))))))..)))).))))....)))))).........))))) (-27.00 = -27.00 +   0.00) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:08 2006