Locus 3167

Sequence ID	2R_DroMel_CAF1
Location	10,819,972 – 10,820,063
Length	91
Max. P	0.825772

overview

Window 3

Location	10,819,972 – 10,820,063
Length	91
Sequences	5
Columns	91
Reading direction	forward
Mean pairwise identity	92.06
Mean single sequence MFE	-27.90
Consensus MFE	-19.52
Energy contribution	-21.04
Covariance contribution	1.52
Combinations/Pair	1.10
Mean z-score	-2.73
Structure conservation index	0.70
SVM decision value	0.32
SVM RNA-class probability	0.686898
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10819972 91 + 20766785
CGGCUGUCAUAAUUUUCAAUUUUAUACCUCCCGAGCUUUAUGCUCACCUAUCCGGGAGGAGUCCGGGCUAUGGACCCCGGAGUUUAUGCCG
((((......................((((((((((.....))))........))))))..((((((........))))))......)))) ( -31.60)
>DroSec_CAF1 27348 91 + 1
CGGCUGUCAUAAUUUUCAAUUUUAUACCUCCCGAGCUUUAUGCUCACCUAACCGGGAGGAGUCCGGACUAUGGACUCCGGAGUUUAUGCCG
((((....((((.........))))..((((.((((.....)))).(((....))).((((((((.....)))))))))))).....)))) ( -31.30)
>DroSim_CAF1 27613 91 + 1
CGGCUGUCAUAAUUUUCAAUUUUAUACCUCCCGAGCUUUAUGCUCACCUAACCGAGAGGAGUCCGGACUAUGGACUCCGGAGUUUAUGCCG
((((....((((.........))))..((((.((((.....))))............((((((((.....)))))))))))).....)))) ( -30.00)
>DroEre_CAF1 32253 88 + 1
CGUCUGUCAUAAUUUUCAAUUUUAUACCUCCUGAGCUUUAUGCUCACCUACCCGGG---AGUCCGGACUAUGGACUCCGGAGUUUAUGCCG
.....(.(((((.((((..............(((((.....)))))........((---((((((.....)))))))))))).))))).). ( -26.40)
>DroYak_CAF1 33425 84 + 1
CGUCUGUCAUAAUUUUCAAUUUUAUACCUCCCGAGCUUUAUGCUCACCUAUCCGGG---AGUACGGACUA----CUCCGAAGUUUAUGCCG
.....(.(((((.((((...............((((.....)))).........((---((((.....))----)))))))).))))).). ( -20.20)
>consensus
CGGCUGUCAUAAUUUUCAAUUUUAUACCUCCCGAGCUUUAUGCUCACCUAACCGGGAGGAGUCCGGACUAUGGACUCCGGAGUUUAUGCCG
((((......................((((((((((.....))))........))))))..((((((........))))))......)))) (-19.52 = -21.04 +   1.52)

alignment

secondary structure

dotplot

Window 4

Location	10,819,972 – 10,820,063
Length	91
Sequences	5
Columns	91
Reading direction	reverse
Mean pairwise identity	92.06
Mean single sequence MFE	-27.58
Consensus MFE	-20.82
Energy contribution	-21.98
Covariance contribution	1.16
Combinations/Pair	1.15
Mean z-score	-2.11
Structure conservation index	0.75
SVM decision value	0.70
SVM RNA-class probability	0.825772
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10819972 91 - 20766785
CGGCAUAAACUCCGGGGUCCAUAGCCCGGACUCCUCCCGGAUAGGUGAGCAUAAAGCUCGGGAGGUAUAAAAUUGAAAAUUAUGACAGCCG
((((......((((((........))))))..((((((........((((.....))))))))))......................)))) ( -31.20)
>DroSec_CAF1 27348 91 - 1
CGGCAUAAACUCCGGAGUCCAUAGUCCGGACUCCUCCCGGUUAGGUGAGCAUAAAGCUCGGGAGGUAUAAAAUUGAAAAUUAUGACAGCCG
((((.....(((((((((((.......)))))))..((.....))(((((.....))))))))).(((((.........)))))...)))) ( -30.70)
>DroSim_CAF1 27613 91 - 1
CGGCAUAAACUCCGGAGUCCAUAGUCCGGACUCCUCUCGGUUAGGUGAGCAUAAAGCUCGGGAGGUAUAAAAUUGAAAAUUAUGACAGCCG
((((.....(((((((((((.......)))))))...........(((((.....))))))))).(((((.........)))))...)))) ( -30.30)
>DroEre_CAF1 32253 88 - 1
CGGCAUAAACUCCGGAGUCCAUAGUCCGGACU---CCCGGGUAGGUGAGCAUAAAGCUCAGGAGGUAUAAAAUUGAAAAUUAUGACAGACG
.(.(((((((((.(((((((.......)))))---)).))))...(((((.....)))))...................))))).)..... ( -26.60)
>DroYak_CAF1 33425 84 - 1
CGGCAUAAACUUCGGAG----UAGUCCGUACU---CCCGGAUAGGUGAGCAUAAAGCUCGGGAGGUAUAAAAUUGAAAAUUAUGACAGACG
.(.(((((..((((((.----...)))...((---(((........((((.....)))))))))..........)))..))))).)..... ( -19.10)
>consensus
CGGCAUAAACUCCGGAGUCCAUAGUCCGGACUCCUCCCGGAUAGGUGAGCAUAAAGCUCGGGAGGUAUAAAAUUGAAAAUUAUGACAGCCG
((((.....(((((((((((.......)))))))..((.....))(((((.....))))))))).(((((.........)))))...)))) (-20.82 = -21.98 +   1.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:04 2006