Locus 6121

Sequence ID	X_DroMel_CAF1
Location	15,685,463 – 15,685,663
Length	200
Max. P	0.995970

overview

Window 2

Location	15,685,463 – 15,685,583
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.56
Mean single sequence MFE	-33.96
Consensus MFE	-24.86
Energy contribution	-26.62
Covariance contribution	1.76
Combinations/Pair	1.08
Mean z-score	-1.85
Structure conservation index	0.73
SVM decision value	-0.04
SVM RNA-class probability	0.511475
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15685463 120 + 22224390
CAACUAUUCAAUAGCCAGCCACCCAGUGUGCUCAAUAAAUGCCUAAAAUAACACUUACUUUAUCAGAUGGUAUUGUUCGGUGCAUUUUCUGUGUGGUGGUGGCCAAUGGGGUGGUGAUAU
..(((((((....((((.((((((((.((((.(....((((((....((((........)))).....)))))).....).))))...)))...))))))))).....)))))))..... ( -34.10)
>DroSec_CAF1 1135 120 + 1
CAACUAUUCAAUAGCCAGCCACCCACUGUGCUCAAUAAAUGCCUAAAAUAACACUUACUUUAUCAGAUGGUAUUGUUCGGUGCAUUUUCUGUGUGGUGGUGGCCAAUGGGGUGGUGAUAU
..(((((((....((((.((((((((.((((.(....((((((....((((........)))).....)))))).....).)))).....))).))))))))).....)))))))..... ( -35.60)
>DroSim_CAF1 1013 120 + 1
CAACUAUUCAAUAGCCAGCCACCCACUGUGCUCAAUAAAUGCCUAAAAUAACACUUACUUUAUCAGAUGGUAUUGUUCGGUGCAUUUUCUGUGUGGUGGUGGCCAACGGGGUGGUGAUAU
..(((((((....((((.((((((((.((((.(....((((((....((((........)))).....)))))).....).)))).....))).))))))))).....)))))))..... ( -35.60)
>DroEre_CAF1 2551 116 + 1
CAAGCAUUCAAUAUC----CACCCGGUGUACUCAAUAAAUGCCUAAUAUAAUACUUACUUUAUCAGAUGGUAUUGUUCGGUGCAUUUUCUGUGUAGUGGAGGCCAAAGGGGUGGUGAUAU
..............(----(((((..((..(((....((((((....((((........)))).....))))))...((.(((((.....))))).)))))..))...))))))...... ( -28.10)
>DroYak_CAF1 1027 116 + 1
CAAGCAUUCAAUAGC----CACCCACUGUACUCAAUAAAUGCCUAAAAUAAUACUUACUUUAUCAGAUGGUAUUGUUCGGUGCAUUUUGUGUGUGGUGGUGGCCAAUGGGGUGGUGAUCU
((..(((((....((----((((.((..(((.(((..(((((((..(((((((((..((.....))..))))))))).)).)))))))).)))..)))))))).....))))).)).... ( -36.40)
>consensus
CAACUAUUCAAUAGCCAGCCACCCACUGUGCUCAAUAAAUGCCUAAAAUAACACUUACUUUAUCAGAUGGUAUUGUUCGGUGCAUUUUCUGUGUGGUGGUGGCCAAUGGGGUGGUGAUAU
..(((((((....((((.((((((((((((((.(((((.((((....((((........)))).....))))))))).))))))......))).))))))))).....)))))))..... (-24.86 = -26.62 +   1.76)

alignment

secondary structure

dotplot

Window 3

Location	15,685,543 – 15,685,663
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.00
Mean single sequence MFE	-39.01
Consensus MFE	-35.28
Energy contribution	-35.60
Covariance contribution	0.32
Combinations/Pair	1.03
Mean z-score	-2.02
Structure conservation index	0.90
SVM decision value	2.64
SVM RNA-class probability	0.995970
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15685543 120 - 22224390
AUUGGCCGCCGAUGGUUGCGGAUCCGGAAUCCUUAGCCCAUCGGAGGUCGCCACCCAUUGUUGCGCCAAUGUCAAGGCCAAUAUCACCACCCCAUUGGCCACCACCACACAGAAAAUGCA
...((((.((((((((((.((((.....)))).))).))))))).))))((....(((((......)))))....(((((((...........))))))).................)). ( -38.30)
>DroSec_CAF1 1215 120 - 1
AUUGGCCGCCGAUGGUUGCGGAUCCGGAAUCCUUAGCCCAUCGGAGGUCGCCACCCAUUGUUGCGCCAAUGUCAAGGCCAAUAUCACCACCCCAUUGGCCACCACCACACAGAAAAUGCA
...((((.((((((((((.((((.....)))).))).))))))).))))((....(((((......)))))....(((((((...........))))))).................)). ( -38.30)
>DroSim_CAF1 1093 120 - 1
AUUGGCCGCCGAUGGUUGCGGAUCCGGAAUCCUUAGCCCAUCGGAGGUCGCCACCCAUUGUUGCGCCAAUGUCAAGGCCAAUAUCACCACCCCGUUGGCCACCACCACACAGAAAAUGCA
...((((.((((((((((.((((.....)))).))).))))))).))))((....(((((......)))))....(((((((...........))))))).................)). ( -38.60)
>DroEre_CAF1 2627 120 - 1
AUUGGCCGCCGAUGGGUCCGGAUCCGGAAUCCUCAGCCCAUCGGAGGUCGCCAGCCAUUGUUGCGCCAAUGUCAAGGCCAAUAUCACCACCCCUUUGGCCUCCACUACACAGAAAAUGCA
...((((.(((((((((..((((.....))))...))))))))).))))((((((....)))).))....((..(((((((.............)))))))..))............... ( -42.82)
>DroYak_CAF1 1103 120 - 1
AUUGGCCGCCGAUGGAUCCGGAUCCGGAAUCCUCAGCCCAUCGGAGGUCGCCAGCCAUUGUUGCGCCAAUGUCAAGGCCAAGAUCACCACCCCAUUGGCCACCACCACACACAAAAUGCA
...((((.(((((((.((((....)))).........))))))).))))((..(.(((((......))))).)..((((((.............)))))).................)). ( -37.02)
>consensus
AUUGGCCGCCGAUGGUUGCGGAUCCGGAAUCCUUAGCCCAUCGGAGGUCGCCACCCAUUGUUGCGCCAAUGUCAAGGCCAAUAUCACCACCCCAUUGGCCACCACCACACAGAAAAUGCA
...((((.(((((((....((((.....)))).....))))))).))))((....(((((......)))))....(((((((...........))))))).................)). (-35.28 = -35.60 +   0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:48 2006