Locus 8281

Sequence ID	X_DroMel_CAF1
Location	20,603,359 – 20,603,495
Length	136
Max. P	0.796238

overview

Window 1

Location	20,603,359 – 20,603,463
Length	104
Sequences	4
Columns	104
Reading direction	reverse
Mean pairwise identity	94.39
Mean single sequence MFE	-21.57
Consensus MFE	-19.09
Energy contribution	-19.27
Covariance contribution	0.19
Combinations/Pair	1.08
Mean z-score	-1.56
Structure conservation index	0.88
SVM decision value	0.21
SVM RNA-class probability	0.637610
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20603359 104 - 22224390
GCACACUAAACACGAUAACCUCCGAUGACUCAACGAUAUCGUAUAACAGGUGUCUCAUGUCAAAAUCGAUUCACCUGUUUUUCGCCUGCACACCAACGCAACGG
((.........((((((.(....((....))...).))))))..((((((((..((((......)).))..))))))))....)).(((........))).... ( -18.30)
>DroSec_CAF1 8044 104 - 1
GCACACAAAACACGAUAACCUCCGAUGACUCAUCGAUAUCGUAUAACAGGUGUCUCAUGUCAAAAUCGAUUCACCUGUUUUUCGCCUGCACACCAACGCAACGG
((.........((((((.....(((((...))))).))))))..((((((((..((((......)).))..))))))))....)).(((........))).... ( -22.60)
>DroEre_CAF1 8074 104 - 1
ACACACAAAACACGAUAACCUCCGAUAACGCGUCGAUAUCGGACAACAGGUGUCUCAUGUCAAAAUCGAUUCACCUGUUUUUCGCCUGCACACCAACGCAACGG
............(((.....(((((((.((...)).))))))).((((((((..((((......)).))..))))))))..)))..(((........))).... ( -23.60)
>DroYak_CAF1 8290 104 - 1
ACACACAAAACACGAUUACCUUCGAUAACGCAUCGAUAUCGGACAACAGGUGUCUCAUGUCAAAAUCGAUUCACCUGUUUUUCGCCUGCACACCAACGCAACGG
............((.......(((((.....)))))...((((.((((((((..((((......)).))..)))))))).))))..(((........))).)). ( -21.80)
>consensus
ACACACAAAACACGAUAACCUCCGAUAACGCAUCGAUAUCGGACAACAGGUGUCUCAUGUCAAAAUCGAUUCACCUGUUUUUCGCCUGCACACCAACGCAACGG
............(((.....(((((((.(.....).))))))).((((((((..((((......)).))..))))))))..)))..(((........))).... (-19.09 = -19.27 +   0.19)

alignment

secondary structure

dotplot

Window 2

Location	20,603,399 – 20,603,495
Length	96
Sequences	3
Columns	96
Reading direction	reverse
Mean pairwise identity	78.47
Mean single sequence MFE	-13.28
Consensus MFE	-9.05
Energy contribution	-9.17
Covariance contribution	0.11
Combinations/Pair	1.08
Mean z-score	-1.72
Structure conservation index	0.68
SVM decision value	0.60
SVM RNA-class probability	0.796238
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20603399 96 - 22224390
AAACAACCAACCAACCGACAAUCCAACAAAACGCACACUAAACACGAUAACCUCCGAUGACUCAACGAUAUCGUAUAACAGGUGUCUCAUGUCAAA
................((((......................((((........)).)).......((((((........))))))...))))... ( -10.90)
>DroSec_CAF1 8084 92 - 1
AAACAAUC----AACCGACAACCCAACAAAACGCACACAAAACACGAUAACCUCCGAUGACUCAUCGAUAUCGUAUAACAGGUGUCUCAUGUCAAA
........----....((((............((((.......((((((.....(((((...))))).)))))).......))))....))))... ( -12.63)
>DroYak_CAF1 8330 89 - 1
AAACAAUCUGUCGGUUGAU---UGAAC-C---ACACACAAAACACGAUUACCUUCGAUAACGCAUCGAUAUCGGACAACAGGUGUCUCAUGUCAAA
...(((((........)))---))...-.---............(((......)))..........(((((.(((((.....))))).)))))... ( -16.30)
>consensus
AAACAAUC___CAACCGACAA_CCAACAAAACGCACACAAAACACGAUAACCUCCGAUGACUCAUCGAUAUCGUAUAACAGGUGUCUCAUGUCAAA
................((((........................((........))..........((((((........))))))...))))... ( -9.05 =  -9.17 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:00:06 2006