Locus 57

Sequence ID	X_DroMel_CAF1
Location	249,879 – 249,987
Length	108
Max. P	0.784638

overview

Window 8

Location	249,879 – 249,987
Length	108
Sequences	3
Columns	108
Reading direction	forward
Mean pairwise identity	95.68
Mean single sequence MFE	-33.50
Consensus MFE	-29.27
Energy contribution	-29.72
Covariance contribution	0.45
Combinations/Pair	1.03
Mean z-score	-2.30
Structure conservation index	0.87
SVM decision value	0.57
SVM RNA-class probability	0.784638
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 249879 108 + 22224390
GGCACCGAAAAUGCCAGUCGGUGCAGAAAAAAGCAACCCCUAACAAAUGAGCGUGUGUUCAUUUUAUUUGUGCCCUGUGCUGCGCACGGUUAUUUUUCAGCUGCACCA
((((.......))))....(((((((..(((((.((((......((((((((....)))))))).....((((.(......).)))))))).)))))...))))))). ( -35.90)
>DroSim_CAF1 18625 107 + 1
GGCACCGAAAAUGCAUGUCGGUGCAGAA-AAAGCAACCCCUAACAAAUGAGCGUGUGUUCAUUUUAUUUGUGCCCUGUGCCGCACACGGUUAUUUUUCAGCUGCACCA
.(((.......))).....(((((((.(-((((.((((......((((((((....))))))))....(((((........))))).)))).)))))...))))))). ( -32.00)
>DroYak_CAF1 19441 108 + 1
GGCACCGAAAAUUCAUGUCGGUGCAGAAAAAAGCAACCCCUAACAAAUGAGCGUGUUUUCAUUUUAUUUGUGCCCUGUGCUGCGCACGGUUAUUUUUCAGCUGCACCA
((((..((....)).))))(((((((..(((((.((((....(((((((((.(((....)))))))))))).....((((...)))))))).)))))...))))))). ( -32.60)
>consensus
GGCACCGAAAAUGCAUGUCGGUGCAGAAAAAAGCAACCCCUAACAAAUGAGCGUGUGUUCAUUUUAUUUGUGCCCUGUGCUGCGCACGGUUAUUUUUCAGCUGCACCA
(((.............)))(((((((..(((((.((((......((((((((....))))))))....(((((........))))).)))).)))))...))))))). (-29.27 = -29.72 +   0.45)

alignment

secondary structure

dotplot

Window 9

Location	249,879 – 249,987
Length	108
Sequences	3
Columns	108
Reading direction	reverse
Mean pairwise identity	95.68
Mean single sequence MFE	-33.83
Consensus MFE	-31.29
Energy contribution	-31.73
Covariance contribution	0.45
Combinations/Pair	1.03
Mean z-score	-1.91
Structure conservation index	0.92
SVM decision value	0.46
SVM RNA-class probability	0.747017
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 249879 108 - 22224390
UGGUGCAGCUGAAAAAUAACCGUGCGCAGCACAGGGCACAAAUAAAAUGAACACACGCUCAUUUGUUAGGGGUUGCUUUUUUCUGCACCGACUGGCAUUUUCGGUGCC
.(((((((..(((((.(((((((((.(......).)))).....((((((........))))))......))))).))))).)))))))....(((((.....))))) ( -37.10)
>DroSim_CAF1 18625 107 - 1
UGGUGCAGCUGAAAAAUAACCGUGUGCGGCACAGGGCACAAAUAAAAUGAACACACGCUCAUUUGUUAGGGGUUGCUUU-UUCUGCACCGACAUGCAUUUUCGGUGCC
.(((((((..(((((.(((((((((.(......).)))).....((((((........))))))......))))).)))-))))))))).....((((.....)))). ( -32.50)
>DroYak_CAF1 19441 108 - 1
UGGUGCAGCUGAAAAAUAACCGUGCGCAGCACAGGGCACAAAUAAAAUGAAAACACGCUCAUUUGUUAGGGGUUGCUUUUUUCUGCACCGACAUGAAUUUUCGGUGCC
.(((((((..(((((.(((((((((.(......).)))).....((((((........))))))......))))).))))).)))))))................... ( -31.90)
>consensus
UGGUGCAGCUGAAAAAUAACCGUGCGCAGCACAGGGCACAAAUAAAAUGAACACACGCUCAUUUGUUAGGGGUUGCUUUUUUCUGCACCGACAUGCAUUUUCGGUGCC
.(((((((..(((((.(((((((((.(......).)))).....((((((........))))))......))))).))))).))))))).....((((.....)))). (-31.29 = -31.73 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:32 2006