Locus 5801

Sequence ID X_DroMel_CAF1
Location 15,045,921 – 15,046,060
Length 139
Max. P 0.881158
window9411 window9412

overview

Window 1

Location 15,045,921 – 15,046,020
Length 99
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 81.34
Mean single sequence MFE -31.98
Consensus MFE -20.50
Energy contribution -20.62
Covariance contribution 0.12
Combinations/Pair 1.19
Mean z-score -1.65
Structure conservation index 0.64
SVM decision value -0.02
SVM RNA-class probability 0.525745
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15045921 99 - 22224390
AGUUUCUGAUUGCGAAACACAAAAAGGGA--G--CCAAAAUGGUAGGAAAACAUGGGGAGCUGGCUGACAGCGGACCUA-----------------GUCGAUGUCGAUGAUGGUUCCCUG
.(((((.......)))))......(((((--(--(((................((((..((((.....))))...))))-----------------((((....))))..))))))))). ( -34.40)
>DroSec_CAF1 1712 97 - 1
AGUUUCUGAUUGCGAAGCACAAAAAGGGA--G--CAAAAAUGGAAGGAGAACAUGGGGAGCUGGCUGACAGCGGACCUA-----------------GUCGAUGUCGAUGAUGG--CCCUG
.(((((.......))))).......(((.--(--(....((.((....((...((((..((((.....))))...))))-----------------.))....)).))....)--)))). ( -26.70)
>DroEre_CAF1 1477 97 - 1
AGUUUCUGAUUGCAAAGCACAAAAAGGGG-----GCAAAAUGGUAGGAAAACAUGGGAAGCUGGCUGACAGCGGACCCGU------------------CGAUGUCGAUGAUGGUUCCCUG
.((((.((....))))))......(((((-----((...((.((.((.....(((((..((((.....))))...)))))------------------.....)).)).)).))))))). ( -26.40)
>DroYak_CAF1 1527 120 - 1
AGUUUCUGAUUGCAAAGCACAAAAGGGGGGAGCGGCAAAAUGGUAGGAUAACUUGGGAAGCUGGCUGACAGCGGACCCGUCCAUGUCGAUGUCGAUGUCGAUGUCGAUGAUGGUUCCCUG
....(((...(((...)))....)))((((((((((.....(((......))).(((..((((.....))))...))))))(((((((((((((....)))))))))).)))))))))). ( -40.40)
>consensus
AGUUUCUGAUUGCAAAGCACAAAAAGGGA__G__CCAAAAUGGUAGGAAAACAUGGGAAGCUGGCUGACAGCGGACCCA_________________GUCGAUGUCGAUGAUGGUUCCCUG
.(((((.......)))))......((((.........................((((..((((.....))))...)))).................((((....)))).......)))). (-20.50 = -20.62 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 15,045,945 – 15,046,060
Length 115
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 88.54
Mean single sequence MFE -26.63
Consensus MFE -22.99
Energy contribution -22.55
Covariance contribution -0.44
Combinations/Pair 1.15
Mean z-score -1.84
Structure conservation index 0.86
SVM decision value 0.92
SVM RNA-class probability 0.881158
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15045945 115 - 22224390
AAAAAGGAACAACGGAAAAAAUCAUCAAUAGGCCAUGAUGAGUUUCUGAUUGCGAAACACAAAAAGGGA--G--CCAAAAUGGUAGGAAAACAUGGGGAGCUGGCUGACAGCGGACCUA-
.........(((((((((...((((((........)))))).)))))).))).................--(--((.....))).........((((..((((.....))))...))))- ( -25.90)
>DroSec_CAF1 1734 113 - 1
AAA--AGAACAACGGAAAAAAUCAUCAAUAGGCCAUGAUGAGUUUCUGAUUGCGAAGCACAAAAAGGGA--G--CAAAAAUGGAAGGAGAACAUGGGGAGCUGGCUGACAGCGGACCUA-
...--.......((((((...((((((........)))))).)))))).((((................--)--)))................((((..((((.....))))...))))- ( -24.89)
>DroEre_CAF1 1499 115 - 1
AAAAAAGAACAACGGGUAAAAUCAUCAAUAGGCCAUGAUGAGUUUCUGAUUGCAAAGCACAAAAAGGGG-----GCAAAAUGGUAGGAAAACAUGGGAAGCUGGCUGACAGCGGACCCGU
...........((((((....((((......(((((..((..(..((..(((.......)))..))..)-----.))..)))))........))))...((((.....))))..)))))) ( -26.54)
>DroYak_CAF1 1567 120 - 1
AAAAAAGAAGAACGGAAAAAAUCAUCAAUAGGCCAUGAUGAGUUUCUGAUUGCAAAGCACAAAAGGGGGGAGCGGCAAAAUGGUAGGAUAACUUGGGAAGCUGGCUGACAGCGGACCCGU
.......(((..((((((...((((((........)))))).)))))).((((...((.(........)..)).)))).............)))(((..((((.....))))...))).. ( -29.20)
>consensus
AAAAAAGAACAACGGAAAAAAUCAUCAAUAGGCCAUGAUGAGUUUCUGAUUGCAAAGCACAAAAAGGGA__G__CCAAAAUGGUAGGAAAACAUGGGAAGCUGGCUGACAGCGGACCCA_
............((((((...((((((........)))))).)))))).............................................((((..((((.....))))...)))). (-22.99 = -22.55 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:41 2006