Locus 1710

Sequence ID	3R_DroMel_CAF1
Location	4,911,303 – 4,911,393
Length	90
Max. P	0.767459

overview

Window 9

Location	4,911,303 – 4,911,393
Length	90
Sequences	3
Columns	90
Reading direction	forward
Mean pairwise identity	99.26
Mean single sequence MFE	-17.70
Consensus MFE	-17.45
Energy contribution	-17.23
Covariance contribution	-0.22
Combinations/Pair	1.04
Mean z-score	-1.71
Structure conservation index	0.99
SVM decision value	0.52
SVM RNA-class probability	0.767459
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4911303 90 + 27905053
ACAGUGCACACUUUGACUUUCUUUAAUUUGAGUUUCAGAAUUCUUUUUGUGCUGCUGUGUGCGUGAUUGCUGUUUGUAUAUUGCUUUUUA
((((((((((....((..((((..(((....)))..)))).))....))))).)))))....(..(((((.....))).))..)...... ( -18.10)
>DroSec_CAF1 18942 90 + 1
ACAGUGCACACUUUGACUUUCUUUAAUUUGAGUUUCAGAAUUCUUUUUGUGUUGCUGUGUGCGUGAUUGCUGUUUGUAUAUUGCUUUUUA
.....((((((..((((.(((........)))...(((((....))))).))))..))))))(..(((((.....))).))..)...... ( -16.90)
>DroSim_CAF1 19019 90 + 1
ACAGUGCACACUUUGACUUUCUUUAAUUUGAGUUUCAGAAUUCUUUUUGUGCUGCUGUGUGCGUGAUUGCUGUUUGUAUAUUGCUUUUUA
((((((((((....((..((((..(((....)))..)))).))....))))).)))))....(..(((((.....))).))..)...... ( -18.10)
>consensus
ACAGUGCACACUUUGACUUUCUUUAAUUUGAGUUUCAGAAUUCUUUUUGUGCUGCUGUGUGCGUGAUUGCUGUUUGUAUAUUGCUUUUUA
((((((((((....((..((((..(((....)))..)))).))....))))).)))))....(..(((((.....))).))..)...... (-17.45 = -17.23 +  -0.22)

alignment

secondary structure

dotplot

Window 0

Location	4,911,303 – 4,911,393
Length	90
Sequences	3
Columns	90
Reading direction	reverse
Mean pairwise identity	99.26
Mean single sequence MFE	-12.09
Consensus MFE	-10.60
Energy contribution	-10.60
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.98
Structure conservation index	0.88
SVM decision value	0.08
SVM RNA-class probability	0.574288
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4911303 90 - 27905053
UAAAAAGCAAUAUACAAACAGCAAUCACGCACACAGCAGCACAAAAAGAAUUCUGAAACUCAAAUUAAAGAAAGUCAAAGUGUGCACUGU
.................((((.......((.....)).(((((....((.((((..............))))..))....))))).)))) ( -12.84)
>DroSec_CAF1 18942 90 - 1
UAAAAAGCAAUAUACAAACAGCAAUCACGCACACAGCAACACAAAAAGAAUUCUGAAACUCAAAUUAAAGAAAGUCAAAGUGUGCACUGU
......((............))......((((((............((....))((...((........))...))...))))))..... ( -10.60)
>DroSim_CAF1 19019 90 - 1
UAAAAAGCAAUAUACAAACAGCAAUCACGCACACAGCAGCACAAAAAGAAUUCUGAAACUCAAAUUAAAGAAAGUCAAAGUGUGCACUGU
.................((((.......((.....)).(((((....((.((((..............))))..))....))))).)))) ( -12.84)
>consensus
UAAAAAGCAAUAUACAAACAGCAAUCACGCACACAGCAGCACAAAAAGAAUUCUGAAACUCAAAUUAAAGAAAGUCAAAGUGUGCACUGU
......((............))......((((((............((....))((...((........))...))...))))))..... (-10.60 = -10.60 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:30 2006