Locus 5037

Sequence ID	3L_DroMel_CAF1
Location	13,796,872 – 13,797,032
Length	160
Max. P	0.999203

overview

Window 6

Location	13,796,872 – 13,796,992
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.67
Mean single sequence MFE	-19.66
Consensus MFE	-17.74
Energy contribution	-17.94
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.56
Structure conservation index	0.90
SVM decision value	0.68
SVM RNA-class probability	0.820275
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13796872 120 + 23771897
UAGUUUCACUAAGCACAACUAUUACAGAGUUUUCAAAUUGUAACGACAAUGAUAAAUAAAUGUUAACAAUGUGCAAAUUGUUUAAAUUUGCCACAAACAACGUGAGGAGUUAAAAACAAA
..((((.(((...(((.......(((..((((....(((((....)))))...))))...)))......((((((((((.....)))))).))))......)))...)))...))))... ( -19.30)
>DroSec_CAF1 33769 120 + 1
UAGUUUCACUAAGCACAACUAUUACACAGUUUUCAAAUUGUAACGACAAUGAUAAAUAAAUGUUAACAAUGUGCAAAUUGUUUAAAUUUGCCACAAACAACGUGAGGAGUUAAAAACAAA
..((((.(((...(((............((((....(((((....)))))...))))...((((.....((((((((((.....)))))).))))))))..)))...)))...))))... ( -18.50)
>DroSim_CAF1 29877 120 + 1
UAGUUUCACUAAGCACAACUAUUACACAGUUUUCAAAUUGUAACGACAAUGAUAAAUAAAUGUUAACAAUGUGCAAAUUGUUUAAAUUUGCCACAAACAACGUGAGGAGUUAAAAACAAA
..((((.(((...(((............((((....(((((....)))))...))))...((((.....((((((((((.....)))))).))))))))..)))...)))...))))... ( -18.50)
>DroEre_CAF1 34872 119 + 1
UAGUUUCACUAAGCACAACUAUUACACAGUUUUCAAAUUGUAACGACAAUGAUAAAUAAAUGUUAACAAUGUGCAAAUUGUUUAAAUUUG-CACAACCAACGUGAGGAGUUAAAAACAAA
..((((.(((...(((............((((....(((((....)))))...))))............((((((((((.....))))))-))))......)))...)))...))))... ( -22.10)
>DroYak_CAF1 32465 120 + 1
UAGUUUCACUAAGCACAACUAUUACACAGUUUUCAAAUUGUAACGACAAUGAUAAAUAAAUGUUAACAAUGUGCAAAUUGUUUAAAUUUGCCACAAACAACGUGAGGAGCUAAAAACAAA
(((((((..................((((((....)))))).(((....(((((......)))))....((((((((((.....)))))).)))).....)))..)))))))........ ( -19.90)
>consensus
UAGUUUCACUAAGCACAACUAUUACACAGUUUUCAAAUUGUAACGACAAUGAUAAAUAAAUGUUAACAAUGUGCAAAUUGUUUAAAUUUGCCACAAACAACGUGAGGAGUUAAAAACAAA
..((((.(((...(((.......(((..((((....(((((....)))))...))))...)))......((((((((((.....)))))).))))......)))...)))...))))... (-17.74 = -17.94 +   0.20)

alignment

secondary structure

dotplot

Window 7

Location	13,796,912 – 13,797,032
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.50
Mean single sequence MFE	-20.94
Consensus MFE	-20.04
Energy contribution	-19.88
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-2.41
Structure conservation index	0.96
SVM decision value	3.43
SVM RNA-class probability	0.999203
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13796912 120 + 23771897
UAACGACAAUGAUAAAUAAAUGUUAACAAUGUGCAAAUUGUUUAAAUUUGCCACAAACAACGUGAGGAGUUAAAAACAAAGACAGCACAUUUACGACCACAAUAACAAUUGCAUUAUCAC
.........((((((.(((((((......((((((((((.....)))))).))))(((..(....)..)))...............)))))))......((((....))))..)))))). ( -19.90)
>DroSec_CAF1 33809 120 + 1
UAACGACAAUGAUAAAUAAAUGUUAACAAUGUGCAAAUUGUUUAAAUUUGCCACAAACAACGUGAGGAGUUAAAAACAAAGACAGCACAUUUACGACCACAAUAACAAUUGCAUUAUCAC
.........((((((.(((((((......((((((((((.....)))))).))))(((..(....)..)))...............)))))))......((((....))))..)))))). ( -19.90)
>DroSim_CAF1 29917 120 + 1
UAACGACAAUGAUAAAUAAAUGUUAACAAUGUGCAAAUUGUUUAAAUUUGCCACAAACAACGUGAGGAGUUAAAAACAAAGACAGCACAUUUACGACCACAAUAACAAUUGCAUUAUCAC
.........((((((.(((((((......((((((((((.....)))))).))))(((..(....)..)))...............)))))))......((((....))))..)))))). ( -19.90)
>DroEre_CAF1 34912 119 + 1
UAACGACAAUGAUAAAUAAAUGUUAACAAUGUGCAAAUUGUUUAAAUUUG-CACAACCAACGUGAGGAGUUAAAAACAAAGGCAGCACAUUUACGACCACAAUAACAAUUGCAUUAUCAC
.........((((((.(((.(((((....((((((((((.....))))))-)))).....((((((..(((............)))...)))))).......))))).)))..)))))). ( -23.20)
>DroYak_CAF1 32505 120 + 1
UAACGACAAUGAUAAAUAAAUGUUAACAAUGUGCAAAUUGUUUAAAUUUGCCACAAACAACGUGAGGAGCUAAAAACAAAGGCAGCACAUUUACGACCACAAUAACAAUUGCAUUAUCAC
.........((((((.(((.(((((....((((((((((.....)))))).)))).....((((((..(((............)))...)))))).......))))).)))..)))))). ( -21.80)
>consensus
UAACGACAAUGAUAAAUAAAUGUUAACAAUGUGCAAAUUGUUUAAAUUUGCCACAAACAACGUGAGGAGUUAAAAACAAAGACAGCACAUUUACGACCACAAUAACAAUUGCAUUAUCAC
.........((((((.(((.(((((....((((((((((.....)))))).)))).....((((((..(((............)))...)))))).......))))).)))..)))))). (-20.04 = -19.88 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:19 2006