Locus 6208

Sequence ID	2L_DroMel_CAF1
Location	17,298,703 – 17,298,871
Length	168
Max. P	0.982965

overview

Window 0

Location	17,298,703 – 17,298,793
Length	90
Sequences	5
Columns	90
Reading direction	reverse
Mean pairwise identity	95.33
Mean single sequence MFE	-29.02
Consensus MFE	-25.76
Energy contribution	-25.92
Covariance contribution	0.16
Combinations/Pair	1.03
Mean z-score	-1.80
Structure conservation index	0.89
SVM decision value	1.93
SVM RNA-class probability	0.982965
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17298703 90 - 22407834
UGCCUCCAAUCGAGCUCGGUUAUUAUGUCGUCCUGAGUGGAGGAGUGGUAGCAUCGAUUGGAAAUGGGAAUCGGACUCGUUAUCAUUUGA
....(((((((((.....((((((((.((.(((.....))).)))))))))).)))))))))((((((.......))))))......... ( -28.90)
>DroSec_CAF1 149331 90 - 1
UGCCUCCAAUCGAGCUCGGUUAUUAUGUCGUCCGGAUCGGAGGAGUGGUAGCAUCGAUUGGAAAUGGGAAUCGGACUCGUUAUCAUUUGA
....(((((((((.....((((((((.((.((((...)))).)))))))))).)))))))))((((((.......))))))......... ( -29.20)
>DroSim_CAF1 143281 90 - 1
UGCCUCCAAUCGAGCUCGGUUAUUAUGUCGUCCGGAUCGGAGGAGUGGUAGCAUCGAUUGGAAAUGGGAAUCGGACUCGUUAUCAUUUGA
....(((((((((.....((((((((.((.((((...)))).)))))))))).)))))))))((((((.......))))))......... ( -29.20)
>DroEre_CAF1 136692 90 - 1
UGCCUCCAAUCGAGCUCGGUUAUUAUGUCCUCCUGAUCGGAGGAGUAGCAGCAUCGAUUGCAAAUGGGAAUCGAACUCGUCAUCAUUUGA
......((((((((((..(((((....((((((.....)))))))))))))).)))))))(((((((....((....))...))))))). ( -30.20)
>DroYak_CAF1 139924 90 - 1
UGCCUCCAAUCGAGCUCGGUUAUUAUGUCGUCCUGAUCGGAGGAGUAGUAGCAUCGAUUGGAAAUGGGAAUCGGACUCGUCAUCAUUUGA
....(((((((((.....((((((((.((.(((.....))).)))))))))).)))))))))(((((....((....))...)))))... ( -27.60)
>consensus
UGCCUCCAAUCGAGCUCGGUUAUUAUGUCGUCCUGAUCGGAGGAGUGGUAGCAUCGAUUGGAAAUGGGAAUCGGACUCGUUAUCAUUUGA
.....((((((((.....((((((((.((.(((.....))).)))))))))).))))))))((((((....((....))...)))))).. (-25.76 = -25.92 +   0.16)

alignment

secondary structure

dotplot

Window 1

Location	17,298,773 – 17,298,871
Length	98
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	98.16
Mean single sequence MFE	-28.10
Consensus MFE	-27.12
Energy contribution	-27.08
Covariance contribution	-0.04
Combinations/Pair	1.04
Mean z-score	-1.21
Structure conservation index	0.97
SVM decision value	0.25
SVM RNA-class probability	0.653866
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17298773 98 - 22407834
UCCUUCAUUUUGCAUCGUCCUUCGGGUGCAGUAAGUGGCAUAAAAGUCAACCGACGGCGAAUCGUCUGCUACUUUUUCUGCCUCCAAUCGAGCUCGGU
...........((.(((......(((.((((.((((((((.....(((....)))((((...))))))))))))...)))).)))...)))))..... ( -27.80)
>DroSec_CAF1 149401 98 - 1
UCCUUCAUUUUGCAUCGUCCUUCGGGUGCAGUAAGUGGCAUAAAAGUCAACCGACGGCGAAUCGUCUGCUACUUUUUCUGCCUCCAAUCGAGCUCGGU
...........((.(((......(((.((((.((((((((.....(((....)))((((...))))))))))))...)))).)))...)))))..... ( -27.80)
>DroSim_CAF1 143351 98 - 1
UCCUUCAUUUUGCAUCGUCCUUCGGGUGCAGUAAGUGGCAUAAAAGUCAACCGACGGCGAAUCGUCUGCUACUUUUUCUGCCUCCAAUCGAGCUCGGU
...........((.(((......(((.((((.((((((((.....(((....)))((((...))))))))))))...)))).)))...)))))..... ( -27.80)
>DroEre_CAF1 136762 98 - 1
CCCUUCAUUUUGCAUCGUCCUUCGGGUGCAGUAGGUGGCAUAAAAGUCAAUCGACGGCGAAUCGUCUGCUACUUUUUGUGCCUCCAAUCGAGCUCGGU
...........((.(((......(((..(((.((((((((.....(((....)))((((...)))))))))))).)))..))).....)))))..... ( -29.60)
>DroYak_CAF1 139994 98 - 1
UCCUUCAUUUUGCAUCGUCCUUCGGGUGCAGUAGGUGGCAUAAAAGUCAACCGACGGCGAAUCGUCUGCUACUUUUUCUGCCUCCAAUCGAGCUCGGU
...........((.(((......(((.((((.((((((((.....(((....)))((((...))))))))))))...)))).)))...)))))..... ( -27.50)
>consensus
UCCUUCAUUUUGCAUCGUCCUUCGGGUGCAGUAAGUGGCAUAAAAGUCAACCGACGGCGAAUCGUCUGCUACUUUUUCUGCCUCCAAUCGAGCUCGGU
...........((.(((......(((.((((.((((((((.....(((....)))((((...))))))))))))...)))).)))...)))))..... (-27.12 = -27.08 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:16 2006