Locus 6664

Sequence ID	X_DroMel_CAF1
Location	16,633,982 – 16,634,072
Length	90
Max. P	0.999105

overview

Window 3

Location	16,633,982 – 16,634,072
Length	90
Sequences	5
Columns	90
Reading direction	forward
Mean pairwise identity	97.11
Mean single sequence MFE	-21.52
Consensus MFE	-19.24
Energy contribution	-20.04
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-2.67
Structure conservation index	0.89
SVM decision value	3.37
SVM RNA-class probability	0.999105
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16633982 90 + 22224390
AUUUGUGUUAUUUGCCCACCUGAGCGCAGUUAACUGUGAAAUGAACAGCAACAAAAGGAAAACAAAGAGAGUGGCUGCAAAUAGCAACAA
..(((((((((((((((((((...(((((....)))))..................(.....)....)).))))..))))))))).)))) ( -22.80)
>DroSec_CAF1 1468 90 + 1
AUUUGUGUUAUUUGCUCACCUGAGCGCAGUUAACUGUGAAAUGAACAGCAACAAAAGGAAAACAAAGAGAGUGGCUGCAAAUAGCAACAA
..(((((((((((((((....))))(((((((.((((.......))))........(.....)........)))))))))))))).)))) ( -23.20)
>DroSim_CAF1 1477 90 + 1
AUUUGUGUUAUUUGCUCACCUGAGCGCAGUUAACUGUGAAAUGAACAGCAACAAAAGGAAAACAAAGAGAGUGGCUGCAAAUAGCAACAA
..(((((((((((((((....))))(((((((.((((.......))))........(.....)........)))))))))))))).)))) ( -23.20)
>DroEre_CAF1 1653 90 + 1
AUAUGUGUUAUUUGCUCACCUGAGCGCAGUUAACUGUGAAAUAAACAGCAACAAAAGGAAAACAAAGAGAGUGGCUACAAAGAGCAACAA
...(((.((((((((((....))))((((....)))).))))))...)))....................((.(((......))).)).. ( -17.40)
>DroYak_CAF1 1479 90 + 1
AUUUGUGUUAUUUGCUCACCUGAGCGCAGUUAACUGUGAAAUAAACAGCAACAAAAGGAAAACAAAGAGAGUGCCUGCAAAUAGCAACAA
..(((((((((((((((....))))((.(((..((((.......)))).)))...(((...((.......)).)))))))))))).)))) ( -21.00)
>consensus
AUUUGUGUUAUUUGCUCACCUGAGCGCAGUUAACUGUGAAAUGAACAGCAACAAAAGGAAAACAAAGAGAGUGGCUGCAAAUAGCAACAA
...((((((((((((((....))))(((((((.((((.......))))........(.....)........)))))))))))))).))). (-19.24 = -20.04 +   0.80)

alignment

secondary structure

dotplot

Window 4

Location	16,633,982 – 16,634,072
Length	90
Sequences	5
Columns	90
Reading direction	reverse
Mean pairwise identity	97.11
Mean single sequence MFE	-17.54
Consensus MFE	-16.68
Energy contribution	-16.56
Covariance contribution	-0.12
Combinations/Pair	1.09
Mean z-score	-1.29
Structure conservation index	0.95
SVM decision value	0.71
SVM RNA-class probability	0.829913
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16633982 90 - 22224390
UUGUUGCUAUUUGCAGCCACUCUCUUUGUUUUCCUUUUGUUGCUGUUCAUUUCACAGUUAACUGCGCUCAGGUGGGCAAAUAACACAAAU
((((.(.(((((((..((((.((...(((.........((((((((.......)))).)))).)))...))))))))))))).))))).. ( -17.90)
>DroSec_CAF1 1468 90 - 1
UUGUUGCUAUUUGCAGCCACUCUCUUUGUUUUCCUUUUGUUGCUGUUCAUUUCACAGUUAACUGCGCUCAGGUGAGCAAAUAACACAAAU
..(((((.....))))).......(((((.........((((((((.......)))).))))...((((....)))).......))))). ( -18.10)
>DroSim_CAF1 1477 90 - 1
UUGUUGCUAUUUGCAGCCACUCUCUUUGUUUUCCUUUUGUUGCUGUUCAUUUCACAGUUAACUGCGCUCAGGUGAGCAAAUAACACAAAU
..(((((.....))))).......(((((.........((((((((.......)))).))))...((((....)))).......))))). ( -18.10)
>DroEre_CAF1 1653 90 - 1
UUGUUGCUCUUUGUAGCCACUCUCUUUGUUUUCCUUUUGUUGCUGUUUAUUUCACAGUUAACUGCGCUCAGGUGAGCAAAUAACACAUAU
...((((((((((.((((((.......)).........((((((((.......)))).)))).).))))))).))))))........... ( -16.40)
>DroYak_CAF1 1479 90 - 1
UUGUUGCUAUUUGCAGGCACUCUCUUUGUUUUCCUUUUGUUGCUGUUUAUUUCACAGUUAACUGCGCUCAGGUGAGCAAAUAACACAAAU
((((.(.((((((((((((.......)))............(((((.......)))))...))))((((....))))))))).))))).. ( -17.20)
>consensus
UUGUUGCUAUUUGCAGCCACUCUCUUUGUUUUCCUUUUGUUGCUGUUCAUUUCACAGUUAACUGCGCUCAGGUGAGCAAAUAACACAAAU
..(((((.....))))).......(((((((.(((..(((.(((((.......))))).....)))...))).))))))).......... (-16.68 = -16.56 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:31 2006