Locus 8332

Sequence ID	3L_DroMel_CAF1
Location	21,827,672 – 21,827,766
Length	94
Max. P	0.999832

overview

Window 7

Location	21,827,672 – 21,827,766
Length	94
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	91.41
Mean single sequence MFE	-22.31
Consensus MFE	-19.80
Energy contribution	-20.16
Covariance contribution	0.36
Combinations/Pair	1.05
Mean z-score	-2.88
Structure conservation index	0.89
SVM decision value	4.20
SVM RNA-class probability	0.999832
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21827672 94 + 23771897
CAUGCCA--CUCGCAAUGGCGCAAAAGUUCCUAGACCACUCCAAAAAAGAGAGAAAUAA--AAAAGCACAAAAUUUAUAUGCGCCGUCGCGCAUGCAG
..(((..--..(((.((((((((...(((....)))..((((......).)))......--..................)))))))).)))...))). ( -22.30)
>DroGri_CAF1 51106 93 + 1
CAUGCCACACUCGCAAUGGCGCAAAAGUUCCUAGACCACUCAAAAAACAUAAA-----AAAAAGAACACAAAAUUUAUAUGCGCCGUCGCGCAUGCAG
..(((......(((.((((((((...(((....)))............(((((-----...............))))).)))))))).)))...))). ( -17.46)
>DroSec_CAF1 8222 93 + 1
CAUGCCA--CUCGCAACGGCGCAAAAGUUCCUAGACCACUCCAAAAAAGAGAGAAAUAA--A-AAGCACAAAAUUUAUAUGCGCCGUCGCGCAUGCAG
..(((..--..(((.((((((((...(((....)))..((((......).)))......--.-................)))))))).)))...))). ( -24.10)
>DroSim_CAF1 6868 93 + 1
CAUGCCA--CUCGCAACGGCGCAAAAGUUCCUAGACCACUCCAAAAAAGAGAGAAAUAA--A-AAGCACAAAAUUUAUAUGCGCCGUCGCGCAUGCAG
..(((..--..(((.((((((((...(((....)))..((((......).)))......--.-................)))))))).)))...))). ( -24.10)
>DroEre_CAF1 7424 94 + 1
CAUGCCA--CUCGCAACGGCGCAAAAGUUCCUAGACCACUCCAAAAAAGAGAAAAAUAA--AAAAGCACAAAAUUUAUAUGCGCCGUCGCGCAUGCAG
..(((..--..(((.((((((((...(((....)))..(((.......)))........--..................)))))))).)))...))). ( -23.60)
>consensus
CAUGCCA__CUCGCAACGGCGCAAAAGUUCCUAGACCACUCCAAAAAAGAGAGAAAUAA__AAAAGCACAAAAUUUAUAUGCGCCGUCGCGCAUGCAG
..(((......(((.((((((((...(((....)))..(((.......)))............................)))))))).)))...))). (-19.80 = -20.16 +   0.36)

alignment

secondary structure

dotplot

Window 8

Location	21,827,672 – 21,827,766
Length	94
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	91.41
Mean single sequence MFE	-31.01
Consensus MFE	-26.52
Energy contribution	-26.32
Covariance contribution	-0.20
Combinations/Pair	1.15
Mean z-score	-3.09
Structure conservation index	0.86
SVM decision value	3.85
SVM RNA-class probability	0.999658
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21827672 94 - 23771897
CUGCAUGCGCGACGGCGCAUAUAAAUUUUGUGCUUUU--UUAUUUCUCUCUUUUUUGGAGUGGUCUAGGAACUUUUGCGCCAUUGCGAG--UGGCAUG
.(((...(((((.((((((((((.....))))..(((--(((..((.((((.....)))).))..))))))....)))))).)))))..--..))).. ( -28.30)
>DroGri_CAF1 51106 93 - 1
CUGCAUGCGCGACGGCGCAUAUAAAUUUUGUGUUCUUUUU-----UUUAUGUUUUUUGAGUGGUCUAGGAACUUUUGCGCCAUUGCGAGUGUGGCAUG
(..(((.(((((.((((((............((((((...-----.((((.........))))...))))))...)))))).))))).)))..).... ( -26.76)
>DroSec_CAF1 8222 93 - 1
CUGCAUGCGCGACGGCGCAUAUAAAUUUUGUGCUU-U--UUAUUUCUCUCUUUUUUGGAGUGGUCUAGGAACUUUUGCGCCGUUGCGAG--UGGCAUG
.(((...((((((((((((((((.....)))).((-(--(((..((.((((.....)))).))..))))))....))))))))))))..--..))).. ( -33.90)
>DroSim_CAF1 6868 93 - 1
CUGCAUGCGCGACGGCGCAUAUAAAUUUUGUGCUU-U--UUAUUUCUCUCUUUUUUGGAGUGGUCUAGGAACUUUUGCGCCGUUGCGAG--UGGCAUG
.(((...((((((((((((((((.....)))).((-(--(((..((.((((.....)))).))..))))))....))))))))))))..--..))).. ( -33.90)
>DroEre_CAF1 7424 94 - 1
CUGCAUGCGCGACGGCGCAUAUAAAUUUUGUGCUUUU--UUAUUUUUCUCUUUUUUGGAGUGGUCUAGGAACUUUUGCGCCGUUGCGAG--UGGCAUG
.(((...((((((((((((......(((((.(((...--........((((.....)))).))).))))).....))))))))))))..--..))).. ( -32.20)
>consensus
CUGCAUGCGCGACGGCGCAUAUAAAUUUUGUGCUUUU__UUAUUUCUCUCUUUUUUGGAGUGGUCUAGGAACUUUUGCGCCGUUGCGAG__UGGCAUG
.(((...((((((((((((......(((((.(((.............((((.....)))).))).))))).....))))))))))))......))).. (-26.52 = -26.32 +  -0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:12:50 2006