Locus 7452

Sequence ID	X_DroMel_CAF1
Location	18,606,079 – 18,606,201
Length	122
Max. P	0.961384

overview

Window 0

Location	18,606,079 – 18,606,178
Length	99
Sequences	5
Columns	106
Reading direction	reverse
Mean pairwise identity	86.11
Mean single sequence MFE	-33.70
Consensus MFE	-26.58
Energy contribution	-26.78
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.19
Structure conservation index	0.79
SVM decision value	1.31
SVM RNA-class probability	0.940760
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18606079 99 - 22224390
UGCCAUGUCGGGCAAAAGGCAAACGCAAAUGCGUAGCAUACUUGGCUGCGCAAUUUAAAGCGGCUGUGUGCAAUAUCGCUGCAUACUUUUGGCCCCCAU-------
....(((..((.(((((((((..((((((((((((((.......))))))).))))...)))..)))(((((.......))))).)))))).))..)))------- ( -35.00)
>DroSec_CAF1 67024 104 - 1
UGC--UGUCGGGCAAAAAGCAAACGCAAAUGCGUAGCAUACUUGGCUGCGCAAUUUAAAGCGGCUGUGUGCAAUAGCGCUGCAUACUUUUGGCCCCCAUACCCCUG
...--....((((.(((((....((((((((((((((.......))))))).))))...)))((...((((....)))).))...))))).))))........... ( -33.50)
>DroSim_CAF1 65261 104 - 1
UGC--UGUCGGGCAAAAAGCAAACGCAAAUGCGUAGCAUACUUGGCUGCGCAAUUUAAAGCGGCUGUGUGCAACAGCGCUGCAUACUUUUGGCCCCCAUACCCCUG
...--....((((.(((((.....((...((((((((.......))))))))......((((.((((.....))))))))))...))))).))))........... ( -35.20)
>DroEre_CAF1 53706 97 - 1
CGC--AAACGC---AAACGCAAACGCAAAUGCGUAGCAUACUUGGCUGCGCAAUUUAAGGCAGCUGUGUGCAGCGGCACUGCAUACUUUUGGCCCCAAUCCC----
.((--....))---....((....))...((((((((.......))))))))......(((....((((((((.....)))))))).....)))........---- ( -32.00)
>DroYak_CAF1 58239 104 - 1
UGC--UGUUGCUCAAAAAGCAAACGCAAAUGCGUAGCAUACUUCGCUGCGCAAUUUAAAGCGGCUGUGUGCACUAGCACUGCAUACUUUUGGCCCCAAUCCCCAAG
(((--..(((((.....)))))..)))..((((((((.......)))))))).......(.(((((((((((.......)))))))....)))).).......... ( -32.80)
>consensus
UGC__UGUCGGGCAAAAAGCAAACGCAAAUGCGUAGCAUACUUGGCUGCGCAAUUUAAAGCGGCUGUGUGCAAUAGCGCUGCAUACUUUUGGCCCCCAUACCC__G
.((...............((....))...((((((((.......)))))))).......))(((((((((((.......)))))))....))))............ (-26.58 = -26.78 +   0.20)

alignment

secondary structure

dotplot

Window 1

Location	18,606,110 – 18,606,201
Length	91
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	79.78
Mean single sequence MFE	-30.32
Consensus MFE	-18.98
Energy contribution	-19.46
Covariance contribution	0.48
Combinations/Pair	1.05
Mean z-score	-2.37
Structure conservation index	0.63
SVM decision value	1.53
SVM RNA-class probability	0.961384
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18606110 91 - 22224390
--------------GAUGGCAAAGGGAG---GAGCCACUAUGCCAUGUCGGGCAAAAGGCAAACGCAAAUGCGUAGCAUACUUGGCUGCGCAAUUUAAAGCGGCUGUG
--------------.((((((.((((..---...)).)).))))))............(((..((((((((((((((.......))))))).))))...)))..))). ( -30.30)
>DroSec_CAF1 67062 92 - 1
--------------GAUGGCAAAGGGAGGCGGAGCCACUAUGC--UGUCGGGCAAAAAGCAAACGCAAAUGCGUAGCAUACUUGGCUGCGCAAUUUAAAGCGGCUGUG
--------------(((((((.((...(((...))).)).)))--)))).........(((..((((((((((((((.......))))))).))))...)))..))). ( -31.30)
>DroSim_CAF1 65299 92 - 1
--------------GAUGGCAAAGGGAGGCGGAGCCACUAUGC--UGUCGGGCAAAAAGCAAACGCAAAUGCGUAGCAUACUUGGCUGCGCAAUUUAAAGCGGCUGUG
--------------(((((((.((...(((...))).)).)))--)))).........(((..((((((((((((((.......))))))).))))...)))..))). ( -31.30)
>DroEre_CAF1 53740 98 - 1
GUUGCUGUCAGGCAAAAAGCAAACGCAAAC---GCA--AACGC--AAACGC---AAACGCAAACGCAAAUGCGUAGCAUACUUGGCUGCGCAAUUUAAGGCAGCUGUG
...((((((..((.....((....))....---((.--...((--....))---....))....))...((((((((.......))))))))......)))))).... ( -29.20)
>DroYak_CAF1 58277 89 - 1
--------------GAUGGCAAAGGGAGGC---GCUACAAUGC--UGUUGCUCAAAAAGCAAACGCAAAUGCGUAGCAUACUUCGCUGCGCAAUUUAAAGCGGCUGUG
--------------..........(.((.(---(((....(((--..(((((.....)))))..)))..((((((((.......))))))))......)))).)).). ( -29.50)
>consensus
______________GAUGGCAAAGGGAGGC_GAGCCACUAUGC__UGUCGGGCAAAAAGCAAACGCAAAUGCGUAGCAUACUUGGCUGCGCAAUUUAAAGCGGCUGUG
................((((.............)))).....................(((..((((((((((((((.......))))))).))))...)))..))). (-18.98 = -19.46 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:16 2006