Locus 3176

Sequence ID	3R_DroMel_CAF1
Location	8,425,671 – 8,425,765
Length	94
Max. P	0.812292

overview

Window 5

Location	8,425,671 – 8,425,765
Length	94
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	85.54
Mean single sequence MFE	-30.48
Consensus MFE	-23.20
Energy contribution	-24.12
Covariance contribution	0.92
Combinations/Pair	1.08
Mean z-score	-1.91
Structure conservation index	0.76
SVM decision value	0.65
SVM RNA-class probability	0.812292
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8425671 94 + 27905053
CCCUAGCUUUGGUUCGGCUUUUGGUUUUGGCUUGCUGGCCCACAGCCAUUGCCCAUAUCCAUGGGUGGCCAGGAUGUGCCCUUCACCACC---------CCCU
.........(((...(((...(((((..((((....))))...)))))..))).....))).((((((..(((......)))...)))))---------)... ( -31.20)
>DroSec_CAF1 86810 103 + 1
CCCUGGCUUUGGUUCGGCUUUUGGUUUUGGCUUGCUAGCCCACAGCCAUUGCCCAUAUCCAUGGGUGGCCAGGAUGUGCCCUUCACCACCCACAUCCCCCCCU
....((...(((...(((...(((((..((((....))))...)))))..))).....)))(((((((..(((......)))...)))))))........)). ( -33.40)
>DroSim_CAF1 88507 95 + 1
CCCUGGCUUUGGUUCGGCUUUUGGUUUUGGCUUG--------CAGCCAUUGCCCAUAUCCAUGGGUGGCCAGGAUGUGCCCUUCACCACCCACAUCCCCCCCU
...(((((.......((((...(((....)))..--------.))))...((((((....)))))))))))(((((((............)))))))...... ( -29.80)
>DroEre_CAF1 89320 94 + 1
GCUUGGCUUUGGUUCGGCUUUUGGUUUUGGCUUGCUGUCCCACACUCAUAGCCCAUAUCCAUGGGUGGCCAGAAUGCGCCCUUCACCUCC---------CCUU
((((((((.(((..((((....(((....))).))))..)))........((((((....))))))))))))...)).............---------.... ( -25.80)
>DroYak_CAF1 89351 94 + 1
GCCUGUCUUUGGUUCGGCUUUUGGUUUUGGCUUGCUGGCCCACAGCCAUAGCCCAUAUCCAUGGGUGGCCAGCAUGUGCCCUUCACCUCC---------CCCU
(((.......)))..((.....(((...(((.((((((((..........((((((....))))))))))))))...)))....)))...---------.)). ( -32.20)
>consensus
CCCUGGCUUUGGUUCGGCUUUUGGUUUUGGCUUGCUGGCCCACAGCCAUUGCCCAUAUCCAUGGGUGGCCAGGAUGUGCCCUUCACCACC_________CCCU
..........(((..(((.....(((((((((.((((.....))))....((((((....)))))))))))))))..)))....)))................ (-23.20 = -24.12 +   0.92)

alignment

secondary structure

dotplot

Window 6

Location	8,425,671 – 8,425,765
Length	94
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	85.54
Mean single sequence MFE	-32.90
Consensus MFE	-21.37
Energy contribution	-22.30
Covariance contribution	0.93
Combinations/Pair	1.04
Mean z-score	-1.81
Structure conservation index	0.65
SVM decision value	-0.05
SVM RNA-class probability	0.508500
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8425671 94 - 27905053
AGGG---------GGUGGUGAAGGGCACAUCCUGGCCACCCAUGGAUAUGGGCAAUGGCUGUGGGCCAGCAAGCCAAAACCAAAAGCCGAACCAAAGCUAGGG
.(((---------((((((..((((....)))).))))))).(((.....(((..((((.....))))....)))....)))....))...((.......)). ( -33.60)
>DroSec_CAF1 86810 103 - 1
AGGGGGGGAUGUGGGUGGUGAAGGGCACAUCCUGGCCACCCAUGGAUAUGGGCAAUGGCUGUGGGCUAGCAAGCCAAAACCAAAAGCCGAACCAAAGCCAGGG
.((..((((((((............))))))))..)).(((.(((...(((....(((((((.((((....))))...))....)))))..)))...)))))) ( -36.90)
>DroSim_CAF1 88507 95 - 1
AGGGGGGGAUGUGGGUGGUGAAGGGCACAUCCUGGCCACCCAUGGAUAUGGGCAAUGGCUG--------CAAGCCAAAACCAAAAGCCGAACCAAAGCCAGGG
.((...((..(((((((((..((((....)))).)))))))))((...(((....((((..--------...))))...)))....))...))....)).... ( -34.30)
>DroEre_CAF1 89320 94 - 1
AAGG---------GGAGGUGAAGGGCGCAUUCUGGCCACCCAUGGAUAUGGGCUAUGAGUGUGGGACAGCAAGCCAAAACCAAAAGCCGAACCAAAGCCAAGC
..((---------...(((....((((((((((((((.((...)).....))))).)))))))((........))....))....)))...)).......... ( -25.40)
>DroYak_CAF1 89351 94 - 1
AGGG---------GGAGGUGAAGGGCACAUGCUGGCCACCCAUGGAUAUGGGCUAUGGCUGUGGGCCAGCAAGCCAAAACCAAAAGCCGAACCAAAGACAGGC
....---------...(((....(((...((((((((((((((((.......))))))..)).)))))))).)))...)))....(((............))) ( -34.30)
>consensus
AGGG_________GGUGGUGAAGGGCACAUCCUGGCCACCCAUGGAUAUGGGCAAUGGCUGUGGGCCAGCAAGCCAAAACCAAAAGCCGAACCAAAGCCAGGG
..((.........((((((..((((....)))).))))))..(((...(((....(((((((......)).)))))...)))....)))..)).......... (-21.37 = -22.30 +   0.93)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:56 2006