Locus 1740

Sequence ID	X_DroMel_CAF1
Location	4,846,760 – 4,846,861
Length	101
Max. P	0.859486

overview

Window 9

Location	4,846,760 – 4,846,861
Length	101
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	89.98
Mean single sequence MFE	-22.04
Consensus MFE	-17.24
Energy contribution	-17.44
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.88
Structure conservation index	0.78
SVM decision value	0.82
SVM RNA-class probability	0.859486
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4846760 101 + 22224390
AACGAUUUGUGGCAACAAUAGACAAUUUGAAAUCUUGAUCGAACCUUUUGUUCGCUUCGUUUCGCUGUUCGUUGACUUUUUGUCACC-AUAUCUA-UCUAUUC
...(((..(((((((((((..(((...((((((...((.(((((.....)))))..)))))))).)))..)))).....))))))).-..)))..-....... ( -20.80)
>DroSec_CAF1 46104 89 + 1
AACGAUUUGUGGCAACAAUAGACAAUUUGAAAUCUUGAUCGAACCUUUUGUUCGCUUCGUUUCGCUGUUCGUUGACUU-UUGUCACC-A------------UC
........(((((((((((..(((...((((((...((.(((((.....)))))..)))))))).)))..))))....-))))))).-.------------.. ( -19.30)
>DroSim_CAF1 45296 89 + 1
AACGAUUUGUGGCAACAAUAGACAAUUUGAAAUCUUGAUCGAACCUUUUGUUCGCUUCGUUUCGCUGUUCGUUGACUU-UUGUCACC-A------------UC
........(((((((((((..(((...((((((...((.(((((.....)))))..)))))))).)))..))))....-))))))).-.------------.. ( -19.30)
>DroEre_CAF1 55696 96 + 1
AGCGAUUUGUGGCAACAAUAGACAAUUUGAAAUCUUGAUCGAACCUUUUGUUCGGUUCGUUUCGCUGUUCGUUGACUU-UUGUCACC-AU-----CGCCCAUC
.(((((..(((((((((((..(((...((((((...((((((((.....)))))))).)))))).)))..))))....-))))))).-))-----)))..... ( -29.30)
>DroYak_CAF1 47343 100 + 1
AACGAUUUGUGGCAACAAUAGACAAUUUGAAAUCUUGAUCAAACCUUUUGUUCGGUUCGUUUCGCUGUUCGUUGACUU-UUGUCACCCAU--CGACGCCCAUC
..((((..(((((((((((..(((...((((((...((((.(((.....))).)))).)))))).)))..))))....-)))))))..))--))......... ( -21.50)
>consensus
AACGAUUUGUGGCAACAAUAGACAAUUUGAAAUCUUGAUCGAACCUUUUGUUCGCUUCGUUUCGCUGUUCGUUGACUU_UUGUCACC_AU_______C___UC
........(((((((((((..(((...((((((...((.(((((.....))))).)).)))))).)))..)))).....)))))))................. (-17.24 = -17.44 +   0.20)

alignment

secondary structure

dotplot

Window 0

Location	4,846,760 – 4,846,861
Length	101
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	89.98
Mean single sequence MFE	-23.24
Consensus MFE	-16.26
Energy contribution	-16.10
Covariance contribution	-0.16
Combinations/Pair	1.06
Mean z-score	-2.12
Structure conservation index	0.70
SVM decision value	0.16
SVM RNA-class probability	0.610233
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4846760 101 - 22224390
GAAUAGA-UAGAUAU-GGUGACAAAAAGUCAACGAACAGCGAAACGAAGCGAACAAAAGGUUCGAUCAAGAUUUCAAAUUGUCUAUUGUUGCCACAAAUCGUU
.......-..(((.(-((..((((...(((........((........))((((.....)))))))..((((........)))).))))..)))...)))... ( -19.70)
>DroSec_CAF1 46104 89 - 1
GA------------U-GGUGACAA-AAGUCAACGAACAGCGAAACGAAGCGAACAAAAGGUUCGAUCAAGAUUUCAAAUUGUCUAUUGUUGCCACAAAUCGUU
..------------(-((..((((-.((.(((((.....))....((..(((((.....))))).))...........))).)).))))..)))......... ( -20.00)
>DroSim_CAF1 45296 89 - 1
GA------------U-GGUGACAA-AAGUCAACGAACAGCGAAACGAAGCGAACAAAAGGUUCGAUCAAGAUUUCAAAUUGUCUAUUGUUGCCACAAAUCGUU
..------------(-((..((((-.((.(((((.....))....((..(((((.....))))).))...........))).)).))))..)))......... ( -20.00)
>DroEre_CAF1 55696 96 - 1
GAUGGGCG-----AU-GGUGACAA-AAGUCAACGAACAGCGAAACGAACCGAACAAAAGGUUCGAUCAAGAUUUCAAAUUGUCUAUUGUUGCCACAAAUCGCU
(((.((((-----(.-.(((((((-(((((..((.....))...((((((........)))))).....)))))....))))).))..)))))....)))... ( -29.70)
>DroYak_CAF1 47343 100 - 1
GAUGGGCGUCG--AUGGGUGACAA-AAGUCAACGAACAGCGAAACGAACCGAACAAAAGGUUUGAUCAAGAUUUCAAAUUGUCUAUUGUUGCCACAAAUCGUU
(((.((((.((--(((((..(...-(((((..((.....))...((((((........)))))).....)))))....)..))))))).))))....)))... ( -26.80)
>consensus
GA___G_______AU_GGUGACAA_AAGUCAACGAACAGCGAAACGAAGCGAACAAAAGGUUCGAUCAAGAUUUCAAAUUGUCUAUUGUUGCCACAAAUCGUU
................((..((((.....................((..(((((.....))))).)).((((........)))).))))..)).......... (-16.26 = -16.10 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:50 2006