Locus 911

Sequence ID	2L_DroMel_CAF1
Location	2,629,407 – 2,629,539
Length	132
Max. P	0.924109

overview

Window 6

Location	2,629,407 – 2,629,502
Length	95
Sequences	3
Columns	95
Reading direction	forward
Mean pairwise identity	86.72
Mean single sequence MFE	-25.10
Consensus MFE	-19.12
Energy contribution	-19.02
Covariance contribution	-0.11
Combinations/Pair	1.11
Mean z-score	-2.20
Structure conservation index	0.76
SVM decision value	0.38
SVM RNA-class probability	0.713544
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2629407 95 + 22407834
ACUCCAUUCCAUCGGACGGACAGACCAUGGACUACGAACUUGGGAGUCCAGACUCCCGAACCCCGAACCCCGAUCCCCGGACUCCAAACUCGAAA
.......(((((.((.(.....).)))))))...(((..((((((((....))))))))..........(((.....))).........)))... ( -23.70)
>DroSec_CAF1 50119 81 + 1
ACUCCAUUCCACCGGACAGACGGACCAUGGACUACGGACUUGGGAGUCCAGACUCCC--------------GAUCCCCGGACUCCAAACUCGAAA
......(((..(((......)))....((((...(((..((((((((....))))))--------------))...)))...)))).....))). ( -25.80)
>DroSim_CAF1 50184 81 + 1
ACUCCAUUCCACCGGACAGACGGACCAUGGACUACGGACUUGGGAGUCCAGACUCCC--------------GAUCCCCGGACUCCAAACUCGAAA
......(((..(((......)))....((((...(((..((((((((....))))))--------------))...)))...)))).....))). ( -25.80)
>consensus
ACUCCAUUCCACCGGACAGACGGACCAUGGACUACGGACUUGGGAGUCCAGACUCCC______________GAUCCCCGGACUCCAAACUCGAAA
..(((((....(((......)))...)))))...(((.....(((((((.............................)))))))....)))... (-19.12 = -19.02 +  -0.11)

alignment

secondary structure

dotplot

Window 7

Location	2,629,433 – 2,629,539
Length	106
Sequences	3
Columns	106
Reading direction	forward
Mean pairwise identity	84.51
Mean single sequence MFE	-30.13
Consensus MFE	-24.22
Energy contribution	-24.55
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.24
Structure conservation index	0.80
SVM decision value	0.87
SVM RNA-class probability	0.872013
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2629433 106 + 22407834
AUGGACUACGAACUUGGGAGUCCAGACUCCCGAACCCCGAACCCCGAUCCCCGGACUCCAAACUCGAAACUCGCAACUCGCAACUCCGAAUUGCCCGACUCCGGGC
.(((....((...((((((((....))))))))....))....)))...((((((.((.......(.....)((((.(((......))).))))..)).)))))). ( -30.60)
>DroSec_CAF1 50145 85 + 1
AUGGACUACGGACUUGGGAGUCCAGACUCCC--------------GAUCCCCGGACUCCAAACUCGAAACUCG-------CAACUCCGAAUGGCCCGACUCCGGGC
.((((...(((..((((((((....))))))--------------))...)))...))))..........(((-------......)))...(((((....))))) ( -29.90)
>DroSim_CAF1 50210 85 + 1
AUGGACUACGGACUUGGGAGUCCAGACUCCC--------------GAUCCCCGGACUCCAAACUCGAAACUCG-------CAACUCCGAAUUGCCCGACUCCGGGC
.((((...(((..((((((((....))))))--------------))...)))...))))..........(((-------......)))...(((((....))))) ( -29.90)
>consensus
AUGGACUACGGACUUGGGAGUCCAGACUCCC______________GAUCCCCGGACUCCAAACUCGAAACUCG_______CAACUCCGAAUUGCCCGACUCCGGGC
........((((.((((((((((.............................))))))).....((.....)).......))).))))....(((((....))))) (-24.22 = -24.55 +   0.33)

alignment

secondary structure

dotplot

Window 8

Location	2,629,433 – 2,629,539
Length	106
Sequences	3
Columns	106
Reading direction	reverse
Mean pairwise identity	84.51
Mean single sequence MFE	-39.77
Consensus MFE	-34.82
Energy contribution	-35.60
Covariance contribution	0.78
Combinations/Pair	1.03
Mean z-score	-2.10
Structure conservation index	0.88
SVM decision value	1.16
SVM RNA-class probability	0.924109
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2629433 106 - 22407834
GCCCGGAGUCGGGCAAUUCGGAGUUGCGAGUUGCGAGUUUCGAGUUUGGAGUCCGGGGAUCGGGGUUCGGGGUUCGGGAGUCUGGACUCCCAAGUUCGUAGUCCAU
(((((....))))).....(((.(((((((....(((..(((((..(.((.((....)))).)..)))))..)))((((((....))))))...)))))))))).. ( -45.60)
>DroSec_CAF1 50145 85 - 1
GCCCGGAGUCGGGCCAUUCGGAGUUG-------CGAGUUUCGAGUUUGGAGUCCGGGGAUC--------------GGGAGUCUGGACUCCCAAGUCCGUAGUCCAU
(((((....))))).....(((.(((-------((..(((.(((((..((.(((.(....)--------------.))).))..)))))..)))..)))))))).. ( -36.40)
>DroSim_CAF1 50210 85 - 1
GCCCGGAGUCGGGCAAUUCGGAGUUG-------CGAGUUUCGAGUUUGGAGUCCGGGGAUC--------------GGGAGUCUGGACUCCCAAGUCCGUAGUCCAU
(((((....))))).....(((.(((-------((..(((.(((((..((.(((.(....)--------------.))).))..)))))..)))..)))))))).. ( -37.30)
>consensus
GCCCGGAGUCGGGCAAUUCGGAGUUG_______CGAGUUUCGAGUUUGGAGUCCGGGGAUC______________GGGAGUCUGGACUCCCAAGUCCGUAGUCCAU
....(((.(((((((((((((((((((.....)))).))))))))).((((((((((..(((((........)))))...))))))))))...))))).).))).. (-34.82 = -35.60 +   0.78)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:32 2006