Locus 5742

Sequence ID X_DroMel_CAF1
Location 14,859,738 – 14,859,856
Length 118
Max. P 0.783006
window9314 window9315

overview

Window 4

Location 14,859,738 – 14,859,829
Length 91
Sequences 3
Columns 93
Reading direction reverse
Mean pairwise identity 95.67
Mean single sequence MFE -30.90
Consensus MFE -27.79
Energy contribution -27.57
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.06
Structure conservation index 0.90
SVM decision value 0.47
SVM RNA-class probability 0.747879
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14859738 91 - 22224390
UUCCACAUUGUAGAAGAGGGGGCGGCAAGCGGAAGAGGGCGGGGCAACGGCGCCGUCUUCUUUCAUUUCAGUUUACUCUUUCAUUCAUUUU--
............((((((..(((.(.(((.((((((((((((.((....)).)))))))))))).)))).)))..))))))..........-- ( -32.70)
>DroSec_CAF1 13277 91 - 1
UUCCACAUUGUAGAA--GGGGGCGGCAAGCGGAAGAGGGCGGGGCAACGGCGCCGUCUUCUUUCAUUUCAGUUUAUUCUUUCAUUCAUUUUAU
............(((--((((((.....))((((((((((((.((....)).))))))))))))...........)))))))........... ( -31.10)
>DroSim_CAF1 5932 91 - 1
UUCCACAUUGUAGAU--GGGGGCGGCAAGCGGAAGAGGGCGGGGCAACGGCGCCGUCUUCUUUCAUUUCAGUUUAUUCUUUCAUUCAUUUUAU
............(((--(..(((.....))((((((((((((.((....)).))))))))))))..............)..))))........ ( -28.90)
>consensus
UUCCACAUUGUAGAA__GGGGGCGGCAAGCGGAAGAGGGCGGGGCAACGGCGCCGUCUUCUUUCAUUUCAGUUUAUUCUUUCAUUCAUUUUAU
.........(((((...(..(((.....))((((((((((((.((....)).)))))))))))).)..)..)))))................. (-27.79 = -27.57 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 14,859,764 – 14,859,856
Length 92
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 95.62
Mean single sequence MFE -37.30
Consensus MFE -35.27
Energy contribution -35.27
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 0.95
SVM decision value 0.56
SVM RNA-class probability 0.783006
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14859764 92 - 22224390
GGCAUGGAAGGCGGUUGGGGUGGGGCGUUCCACAUUGUAGAAGAGGGGGCGGCAAGCGGAAGAGGGCGGGGCAACGGCGCCGUCUUCUUUCA
.((.......)).......((..(.((((((...((......)).)))))).)..))((((((((((((.((....)).)))))))))))). ( -36.10)
>DroSec_CAF1 13305 90 - 1
GGCGAGCAAGGCGGUUGGGGUGGGGCGUUCCACAUUGUAGAA--GGGGGCGGCAAGCGGAAGAGGGCGGGGCAACGGCGCCGUCUUCUUUCA
..(.(((......))).).((..(.((((((...((....))--.)))))).)..))((((((((((((.((....)).)))))))))))). ( -36.40)
>DroSim_CAF1 5960 90 - 1
GGCGAGCAAGGCGGUUGGGGUGGGGCGUUCCACAUUGUAGAU--GGGGGCGGCAAGCGGAAGAGGGCGGGGCAACGGCGCCGUCUUCUUUCA
..(.(((......))).).((..(.((((((.((((...)))--))))))).)..))((((((((((((.((....)).)))))))))))). ( -39.40)
>consensus
GGCGAGCAAGGCGGUUGGGGUGGGGCGUUCCACAUUGUAGAA__GGGGGCGGCAAGCGGAAGAGGGCGGGGCAACGGCGCCGUCUUCUUUCA
.((.......)).......((..(.((((((..............)))))).)..))((((((((((((.((....)).)))))))))))). (-35.27 = -35.27 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:15 2006