Locus 4735

Sequence ID	3L_DroMel_CAF1
Location	13,325,307 – 13,325,449
Length	142
Max. P	0.724955

overview

Window 6

Location	13,325,307 – 13,325,412
Length	105
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	83.94
Mean single sequence MFE	-40.27
Consensus MFE	-27.09
Energy contribution	-28.32
Covariance contribution	1.23
Combinations/Pair	1.19
Mean z-score	-2.53
Structure conservation index	0.67
SVM decision value	0.22
SVM RNA-class probability	0.639998
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13325307 105 + 23771897
GUCUGCCUUCUCUGGCGGACUUUGUUCGUGAAAACGUGGCCUUACCAUUGCCCACGGAGGAGGGCAUUCCCUGUUUCGUGGAGCAGAUAAUCCACAAGGUGGAUA
(((((((......)))))))......(((....)))(((.....)))((((((((((((.((((....)))).)))))))).))))...((((((...)))))). ( -45.90)
>DroSec_CAF1 1247 105 + 1
GUCUGCCUUCUCUGGCGGACUUUGUUCGUGAAAACGUGGCCUUACCAUUGCCCACGGAAGAGGGCAUUCCCUGUUUCGUGGAGCAGAUAGUCCACAAGGUGGAUA
(((((((......)))))))......(((....)))(((.....)))((((((((((((.((((....)))).)))))))).))))...((((((...)))))). ( -46.50)
>DroSim_CAF1 1146 105 + 1
GUCUGCCUUCUCUGGCGGACUUUGUUCGUGAAAACGUGGCCUUACCAUUGCCCACGGAGGAGGGCAUUCCCUGUUUCGUGGAGCAGAUAGUCCACAAGGUGGAUA
(((((((......)))))))......(((....)))(((.....)))((((((((((((.((((....)))).)))))))).))))...((((((...)))))). ( -46.20)
>DroEre_CAF1 10302 105 + 1
GUCUGCCCUCUCUGGCGGACUUUGUUCGUGAAAACUUGGCCUUAAAAUUGCCCACGGAGGAGGGCAUUCCCUGUUUCAUAGAGCAGACAACGCACAAGGUGGAUA
(((((((......)))))))..(((((((....))...(((((.....(((((........)))))....((((((....)))))).........)))))))))) ( -32.60)
>DroYak_CAF1 9919 105 + 1
GUCUGCCUUCCUUAGCGGACUUUGUUCGCGAAAACGUGGCCUUGAAGUUGCCCACGGAGGAGGGCAUUCCCUGUUUCAUAGAGCAGAUAACCCACAAGGUGCACA
...((((((((((.((((((...)))))).....(((((.(........).)))))))))))))))....((((((....))))))...(((.....)))..... ( -37.60)
>DroAna_CAF1 1149 105 + 1
GGCUACCGUCCCUGGCGGACUUUGUGAGGGAGAAUGUGUACAUAAAGCUUCCCGUGGAGGAGGGUGUGCCUCUAUUUAUUGAGCAAAAGACCCACAAGGUGGAUA
..(((((((((.....)))).(((((.((........((((((....(((((...)))))...))))))(((........))).......))))))))))))... ( -32.80)
>consensus
GUCUGCCUUCUCUGGCGGACUUUGUUCGUGAAAACGUGGCCUUAAAAUUGCCCACGGAGGAGGGCAUUCCCUGUUUCAUGGAGCAGAUAACCCACAAGGUGGAUA
(((((((......)))))))(((((((........((((.(........).))))((((.((((....)))).))))...)))))))....((((...))))... (-27.09 = -28.32 +   1.23)

alignment

secondary structure

dotplot

Window 7

Location	13,325,347 – 13,325,449
Length	102
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	84.18
Mean single sequence MFE	-33.15
Consensus MFE	-24.69
Energy contribution	-24.67
Covariance contribution	-0.03
Combinations/Pair	1.33
Mean z-score	-2.35
Structure conservation index	0.74
SVM decision value	0.41
SVM RNA-class probability	0.724955
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13325347 102 - 23771897
UCUUUAACUUCCUGCCGCUGACUCAGUGGCACGAACAUAUCCACCUUGUGGAUUAUCUGCUCCACGAAACAGGGAAUGCCCUCCUCCGUGGGCAAUGGUAAG
........(((.((((((((...)))))))).)))....(((((...)))))((((((((.(((((....((((....))))....))))))))..))))). ( -37.00)
>DroSec_CAF1 1287 102 - 1
UCUUUAACUUCCUGCCGCUGACUCAGUGGCACGAACAUAUCCACCUUGUGGACUAUCUGCUCCACGAAACAGGGAAUGCCCUCUUCCGUGGGCAAUGGUAAG
........(((.((((((((...)))))))).))).....((((...))))(((((.(((.(((((.((.((((....)))).)).)))))))))))))... ( -38.20)
>DroSim_CAF1 1186 102 - 1
UCUUUAACUUCCUGCCGCUGACUCAGUGGCACGAACAUAUCCACCUUGUGGACUAUCUGCUCCACGAAACAGGGAAUGCCCUCCUCCGUGGGCAAUGGUAAG
........(((.((((((((...)))))))).))).....((((...))))(((((.(((.(((((....((((....))))....)))))))))))))... ( -37.10)
>DroEre_CAF1 10342 102 - 1
UCCUUGACCUCCUGCCGCUGACUCAGCGGCACAAACAUAUCCACCUUGUGCGUUGUCUGCUCUAUGAAACAGGGAAUGCCCUCCUCCGUGGGCAAUUUUAAG
((((((.......(((((((...)))))))((((.((((.......))))..)))).............)))))).(((((........)))))........ ( -32.00)
>DroYak_CAF1 9959 102 - 1
UCCUUGACCUCCUGCCGCUGACUGAGUGGCACAAACAUGUGCACCUUGUGGGUUAUCUGCUCUAUGAAACAGGGAAUGCCCUCCUCCGUGGGCAACUUCAAG
((((((......(((((((.....)))))))....((((.(((((.....))).....)).).)))...)))))).(((((........)))))........ ( -30.90)
>DroAna_CAF1 1189 102 - 1
UCCUUCACCUCCUGCCGCAUGCUGAGUGGAACGAACAUAUCCACCUUGUGGGUCUUUUGCUCAAUAAAUAGAGGCACACCCUCCUCCACGGGAAGCUUUAUG
..((((.((((..((.....)).))(((((..((.((.((((((...))))))....)).))........((((.....)))).)))))))))))....... ( -23.70)
>consensus
UCCUUAACCUCCUGCCGCUGACUCAGUGGCACGAACAUAUCCACCUUGUGGAUUAUCUGCUCCACGAAACAGGGAAUGCCCUCCUCCGUGGGCAAUGGUAAG
(((((....((.((((((((...)))))))).))...........(((((((........)))))))...))))).(((((........)))))........ (-24.69 = -24.67 +  -0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:55 2006