Locus 5019

Sequence ID X_DroMel_CAF1
Location 13,130,575 – 13,130,667
Length 92
Max. P 0.903054
window8173 window8174

overview

Window 3

Location 13,130,575 – 13,130,667
Length 92
Sequences 4
Columns 94
Reading direction forward
Mean pairwise identity 85.30
Mean single sequence MFE -27.28
Consensus MFE -20.46
Energy contribution -20.52
Covariance contribution 0.06
Combinations/Pair 1.17
Mean z-score -1.85
Structure conservation index 0.75
SVM decision value 0.60
SVM RNA-class probability 0.796183
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13130575 92 + 22224390
UUGGGCACAGUGUGACCUCGCUGCG--AAUGCCCGUAAAGGCAAUUCUUUCGACGCCCUGGUCACUCUGCCAUUCACUGGAAAUAUUUACAAGU
(((((((..(.((((((..((..((--((((((......)))).....))))..))...)))))).))))).(((....))).......))).. ( -26.30)
>DroSim_CAF1 1822 92 + 1
UUGGGCACAGUGUGACCUCGCUGCG--AAUGCCAGUAAAGGCAAUUCUUCCAGCGCACUGGUCACUCUGCCAUUCACUGGAAAUAUUUAAAAGU
...((((..(.((((((.(((((.(--((((((......))))....))))))))....)))))).)))))....................... ( -30.20)
>DroEre_CAF1 21158 92 + 1
UUGGGCACAGUGUGACCCCGCUGCG--AAUGCCAAUAAAGGCAAUUAUUUUAGCACUCUGGUCACUCUGUAAGUCAAUGGAAAUAUUCUUAAGU
...(((((((.((((((..((((.(--(.((((......))))....)).)))).....)))))).))))..)))................... ( -23.90)
>DroYak_CAF1 8652 94 + 1
UUGGGCUUAGUGUGACCUCGUUGCGAGAAUGCCAAUAAAGGCAGUUCUUUUGCCGCUCUGGUCACUCUGCAAGUCACUGGAAAUAUUUCAAAGU
...(((((((.((((((..((.((((((.((((......))))....)))))).))...)))))).)))..))))................... ( -28.70)
>consensus
UUGGGCACAGUGUGACCUCGCUGCG__AAUGCCAAUAAAGGCAAUUCUUUCAGCGCUCUGGUCACUCUGCAAGUCACUGGAAAUAUUUAAAAGU
.......(((.((((((.(((((......((((......)))).......)))))....)))))).)))......................... (-20.46 = -20.52 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 13,130,575 – 13,130,667
Length 92
Sequences 4
Columns 94
Reading direction reverse
Mean pairwise identity 85.30
Mean single sequence MFE -27.82
Consensus MFE -21.63
Energy contribution -22.95
Covariance contribution 1.31
Combinations/Pair 1.16
Mean z-score -2.08
Structure conservation index 0.78
SVM decision value 1.03
SVM RNA-class probability 0.903054
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13130575 92 - 22224390
ACUUGUAAAUAUUUCCAGUGAAUGGCAGAGUGACCAGGGCGUCGAAAGAAUUGCCUUUACGGGCAUU--CGCAGCGAGGUCACACUGUGCCCAA
.......................((((.((((.....(((.(((...((((.((((....)))))))--)....))).))).)))).))))... ( -28.80)
>DroSim_CAF1 1822 92 - 1
ACUUUUAAAUAUUUCCAGUGAAUGGCAGAGUGACCAGUGCGCUGGAAGAAUUGCCUUUACUGGCAUU--CGCAGCGAGGUCACACUGUGCCCAA
........................((((.((((((....(((((...((((.(((......))))))--).))))).)))))).))))...... ( -31.30)
>DroEre_CAF1 21158 92 - 1
ACUUAAGAAUAUUUCCAUUGACUUACAGAGUGACCAGAGUGCUAAAAUAAUUGCCUUUAUUGGCAUU--CGCAGCGGGGUCACACUGUGCCCAA
.......................(((((.((((((.((((((((..((((......)))))))))))--).......)))))).)))))..... ( -24.50)
>DroYak_CAF1 8652 94 - 1
ACUUUGAAAUAUUUCCAGUGACUUGCAGAGUGACCAGAGCGGCAAAAGAACUGCCUUUAUUGGCAUUCUCGCAACGAGGUCACACUAAGCCCAA
.................(((((((((((((((.((((((.((((.......)))).)).)))))))))).)))....))))))........... ( -26.70)
>consensus
ACUUUUAAAUAUUUCCAGUGAAUGGCAGAGUGACCAGAGCGCCAAAAGAAUUGCCUUUACUGGCAUU__CGCAGCGAGGUCACACUGUGCCCAA
........................((((.((((((....(((((.......((((......))))......))))).)))))).))))...... (-21.63 = -22.95 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:18 2006