Locus 8361

Sequence ID	3L_DroMel_CAF1
Location	21,949,169 – 21,949,300
Length	131
Max. P	0.976100

overview

Window 7

Location	21,949,169 – 21,949,260
Length	91
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	83.94
Mean single sequence MFE	-38.94
Consensus MFE	-31.80
Energy contribution	-35.76
Covariance contribution	3.96
Combinations/Pair	1.06
Mean z-score	-2.05
Structure conservation index	0.82
SVM decision value	1.16
SVM RNA-class probability	0.924389
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21949169 91 + 23771897
GGCACACUGCAACCGCAU-----CGCGACUUUCACUCGCCACGAAUCAGUGGAGUUCACGGGGUCCUCCGUUGGGGGGGCUCCGUGGACUUCGACA
(((....(((....))).-----...((.......)))))........(((((((((((((((((((((....))))))))))))))))))).)). ( -42.20)
>DroSec_CAF1 71049 89 + 1
GGCACACUGCAACCGCAU-----CGCGACUUGCACUUGCCACGAUUCAGUGGAGUUCACGGGGUCCUCCGUCGGG--GGCUCCGUGGACUUCGACG
((((...(((((.(((..-----.)))..)))))..))))........((((((((((((((((((((....)))--))))))))))))))).)). ( -44.50)
>DroSim_CAF1 75295 90 + 1
GGCACACUGCAACCGCAU-----CGCGACUUGCACUUGCCACGAUUCAGUGGAGUUCACGGGGUCCUCCGUCGGG-GGGCUCCGUGGACUUCGACG
((((...(((((.(((..-----.)))..)))))..))))........(((((((((((((((((((((...)))-)))))))))))))))).)). ( -46.80)
>DroEre_CAF1 71162 81 + 1
GGCACACUGCAACCGCGC-----CGCGACUUGCACUUGCCACGAUUCAGUGGAGUUCAGGGGCUCCUCCGACGGGG----------GACUGCGAUG
((((...(((((.(((..-----.)))..)))))..))))........(.((((((....)))))).)((.(((..----------..)))))... ( -27.30)
>DroYak_CAF1 86787 96 + 1
GCCACACUUCAACCACACCACAUCGCGACUUGCACUUGCCACGAUUCAGUAGAGUUCACGGGGUCCUCCGUCGGGGGGACCACGUGGACUUCGUUG
.....................((((.(.(........).).)))).(((..(((((((((.((((((((....)))))))).)))))))))..))) ( -33.90)
>consensus
GGCACACUGCAACCGCAU_____CGCGACUUGCACUUGCCACGAUUCAGUGGAGUUCACGGGGUCCUCCGUCGGGGGGGCUCCGUGGACUUCGACG
((((...(((((.(((........)))..)))))..)))).........((((((((((((((((((((....))))))))))))))))))))... (-31.80 = -35.76 +   3.96)

alignment

secondary structure

dotplot

Window 8

Location	21,949,187 – 21,949,300
Length	113
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	87.32
Mean single sequence MFE	-51.92
Consensus MFE	-43.74
Energy contribution	-47.38
Covariance contribution	3.64
Combinations/Pair	1.10
Mean z-score	-2.15
Structure conservation index	0.84
SVM decision value	1.76
SVM RNA-class probability	0.976100
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21949187 113 + 23771897
CGCGACUUUCACUCGCCACGAAUCAGUGGAGUUCACGGGGUCCUCCGUUGGGGGGGCUCCGUGGACUUCGACAUUGGUCUGGAUGGUCUGCUCCAUGGUCCGUGCUCCAUGCG
.((((((.((.(..((((........((((((((((((((((((((....))))))))))))))))))))....))))..))).)))).))..(((((........))))).. ( -52.40)
>DroSec_CAF1 71067 111 + 1
CGCGACUUGCACUUGCCACGAUUCAGUGGAGUUCACGGGGUCCUCCGUCGGG--GGCUCCGUGGACUUCGACGUGGGUCUGCAUGGUCUGCUCCAUGGUCCGUGCUCCGUGCG
((((....((((..(((..((((((((((((((((((((((((((....)))--))))))))))))))).)).))))))...((((......)))))))..))))....)))) ( -55.80)
>DroSim_CAF1 75313 112 + 1
CGCGACUUGCACUUGCCACGAUUCAGUGGAGUUCACGGGGUCCUCCGUCGGG-GGGCUCCGUGGACUUCGACGUGGGUCUGCAUGGUCUGCUCCAUGGUCCGUGCUCCGUGCG
((((....((((..(((..(((((((((((((((((((((((((((...)))-)))))))))))))))).)).))))))...((((......)))))))..))))....)))) ( -58.10)
>DroEre_CAF1 71180 103 + 1
CGCGACUUGCACUUGCCACGAUUCAGUGGAGUUCAGGGGCUCCUCCGACGGGG----------GACUGCGAUGUGGGUCUGGUUGGUCUGCUCCAUGGCCCGUGCUCCAUGCG
((((....((((..((((.(((((((.((((((....)))))).)((.(((..----------..)))))...)))))))))).((((........)))).))))....)))) ( -38.70)
>DroYak_CAF1 86810 113 + 1
CGCGACUUGCACUUGCCACGAUUCAGUAGAGUUCACGGGGUCCUCCGUCGGGGGGACCACGUGGACUUCGUUGUGCGUCUGGAUGGUUUGCUCCGUGGUCCGUGCUCCAUGCG
((((....((((..((((((((.(((..(((((((((.((((((((....)))))))).)))))))))..)))...))).(((........))))))))..))))....)))) ( -54.60)
>consensus
CGCGACUUGCACUUGCCACGAUUCAGUGGAGUUCACGGGGUCCUCCGUCGGGGGGGCUCCGUGGACUUCGACGUGGGUCUGGAUGGUCUGCUCCAUGGUCCGUGCUCCAUGCG
((((....((((..(((..((((((.((((((((((((((((((((....))))))))))))))))))))...))))))...((((......)))))))..))))....)))) (-43.74 = -47.38 +   3.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:13:28 2006