Locus 5473

Sequence ID	X_DroMel_CAF1
Location	14,227,639 – 14,227,734
Length	95
Max. P	0.879918

overview

Window 9

Location	14,227,639 – 14,227,734
Length	95
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	90.10
Mean single sequence MFE	-23.19
Consensus MFE	-19.24
Energy contribution	-19.92
Covariance contribution	0.68
Combinations/Pair	1.10
Mean z-score	-1.60
Structure conservation index	0.83
SVM decision value	0.69
SVM RNA-class probability	0.823607
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14227639 95 + 22224390
AAUUGUAAUUUUAUACAAAUCGCAGUGGCAAUCGCCAGGCGGAAAAGGGCAAGACGAGAAGCCGACGGGCGGAAAACUUGCGGAAAAGUG-----GAUGG
..(((((......))))).((((..((((....)))).))))......(((((.......(((....)))......))))).........-----..... ( -23.72)
>DroSec_CAF1 136249 95 + 1
AAUUGUAAUUUUAUACAAAUCGCAGUGGCAAUCGCCAGGCGAAAAAGGGCAAGACGAGAAGCCGACGGGCGGAAAACUAGCGGAAAAGUG-----GAUGG
..(((((......))))).(((((((.....(((((.(((......(.......).....)))....)))))...))).)))).......-----..... ( -20.70)
>DroSim_CAF1 116317 95 + 1
AAUUGUAAUUUUAUACAAAUCGCAGUGGCAAUCGCCAGGCGAAAAAGGGCAAGACGAGAAGCCGACGGGCGGAAAACUUGCGGAAAAGUG-----GAUGG
..(((((......))))).((((..((((....)))).))))......(((((.......(((....)))......))))).........-----..... ( -24.62)
>DroEre_CAF1 123997 83 + 1
AAUUGUAAUUUUAUACAAAUCGCAGUGGCAAUCGCCAGUCGAA-AAGGGCAAGA-----------CGGGCGGAAGACUUGUGGAAAGGCG-----GAUGG
.((((..((((.....))))..))))..((.(((((.(((...-...)))...(-----------(((((....).))))).....))))-----).)). ( -21.40)
>DroYak_CAF1 126774 100 + 1
AAUUGUAAUUUUAUACAAAUCGCAGUGGCAAUCGCCAGGCGAAAAAGGGCAAGACGAGAAGCCGACGGGCGGAAAACUUGCGGAAAAGUGAAUGGGAUGG
.......(((((((.((..((((..((((....)))).))))......(((((.......(((....)))......))))).......)).))))))).. ( -25.52)
>consensus
AAUUGUAAUUUUAUACAAAUCGCAGUGGCAAUCGCCAGGCGAAAAAGGGCAAGACGAGAAGCCGACGGGCGGAAAACUUGCGGAAAAGUG_____GAUGG
..(((((......))))).((((..((((....)))).))))......(((((.......(((....)))......)))))................... (-19.24 = -19.92 +   0.68)

alignment

secondary structure

dotplot

Window 0

Location	14,227,639 – 14,227,734
Length	95
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	90.10
Mean single sequence MFE	-19.77
Consensus MFE	-14.80
Energy contribution	-16.20
Covariance contribution	1.40
Combinations/Pair	1.00
Mean z-score	-2.22
Structure conservation index	0.75
SVM decision value	0.91
SVM RNA-class probability	0.879918
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14227639 95 - 22224390
CCAUC-----CACUUUUCCGCAAGUUUUCCGCCCGUCGGCUUCUCGUCUUGCCCUUUUCCGCCUGGCGAUUGCCACUGCGAUUUGUAUAAAAUUACAAUU
.....-----.........(((((......(((....))).......))))).......(((.((((....))))..)))..(((((......))))).. ( -20.02)
>DroSec_CAF1 136249 95 - 1
CCAUC-----CACUUUUCCGCUAGUUUUCCGCCCGUCGGCUUCUCGUCUUGCCCUUUUUCGCCUGGCGAUUGCCACUGCGAUUUGUAUAAAAUUACAAUU
.....-----...................(((..((.(((...(((((..((........))..)))))..))))).)))..(((((......))))).. ( -19.40)
>DroSim_CAF1 116317 95 - 1
CCAUC-----CACUUUUCCGCAAGUUUUCCGCCCGUCGGCUUCUCGUCUUGCCCUUUUUCGCCUGGCGAUUGCCACUGCGAUUUGUAUAAAAUUACAAUU
.....-----.........(((((......(((....))).......)))))......((((.((((....))))..)))).(((((......))))).. ( -21.32)
>DroEre_CAF1 123997 83 - 1
CCAUC-----CGCCUUUCCACAAGUCUUCCGCCCG-----------UCUUGCCCUU-UUCGACUGGCGAUUGCCACUGCGAUUUGUAUAAAAUUACAAUU
.....-----.........(((((((...((((.(-----------((........-...))).))))...((....))))))))).............. ( -16.80)
>DroYak_CAF1 126774 100 - 1
CCAUCCCAUUCACUUUUCCGCAAGUUUUCCGCCCGUCGGCUUCUCGUCUUGCCCUUUUUCGCCUGGCGAUUGCCACUGCGAUUUGUAUAAAAUUACAAUU
...................(((((......(((....))).......)))))......((((.((((....))))..)))).(((((......))))).. ( -21.32)
>consensus
CCAUC_____CACUUUUCCGCAAGUUUUCCGCCCGUCGGCUUCUCGUCUUGCCCUUUUUCGCCUGGCGAUUGCCACUGCGAUUUGUAUAAAAUUACAAUU
...................(((((......(((....))).......)))))......((((.((((....))))..)))).(((((......))))).. (-14.80 = -16.20 +   1.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:48 2006