Locus 1057

Sequence ID	3R_DroMel_CAF1
Location	3,282,560 – 3,282,711
Length	151
Max. P	0.999821

overview

Window 9

Location	3,282,560 – 3,282,675
Length	115
Sequences	5
Columns	115
Reading direction	forward
Mean pairwise identity	96.35
Mean single sequence MFE	-33.50
Consensus MFE	-32.62
Energy contribution	-32.86
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-2.31
Structure conservation index	0.97
SVM decision value	4.16
SVM RNA-class probability	0.999821
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3282560 115 + 27905053
GAUACAUUCAUCGAACCCCAUUGACUCUUUUGGGCUCUUUGUGAUGAAGCAUGUGGAUAGAGAACCGCACAAACCACAAGGGAUUACUACAUCAGAAGAAACCGCAAAAGGGGUU
(((......))).((((((.(((.......(((..(((((.(((((.((..(((((........)))))....((....)).....)).))))))))))..))))))..)))))) ( -27.01)
>DroSec_CAF1 35547 115 + 1
GAUACAUUCAUCGAACCCCAUUGACUCUUUUGGGGUCUUUGUGAUGAAGUAUGUGGAUAGAAAACCGCACAAACCGCAAGGGAUUACUACAUCAGAAGAAACCGCAAAAGGGGUU
(((......))).((((((...(((((.....)))))(((.(((((.(((((((((........)))))....((....))...)))).))))).)))...........)))))) ( -35.90)
>DroSim_CAF1 36596 115 + 1
GAUACAUUCAUCGAACCCCAUUGACUCUUUUGGGGUCUUUGUGAUGAAGUAUGUGGAUAGAAAACCGCACAAACCGCAAGGGAUUACUACAUCAGAAGAAACCGCAAAAGGGGUU
(((......))).((((((...(((((.....)))))(((.(((((.(((((((((........)))))....((....))...)))).))))).)))...........)))))) ( -35.90)
>DroEre_CAF1 37399 115 + 1
GAAACAUUCAUCGAACCCCAUUGACUCUUUUGGGGUCUUUGUGAUGAAGUAUGUGGCUAGAAAACCGCACGAACCGCAAGGGAUUACUACAUCAGAAGAAACCGCAAAAGGGGUU
.............((((((...(((((.....)))))(((.(((((.(((((((((........)))))....((....))...)))).))))).)))...........)))))) ( -35.80)
>DroYak_CAF1 55079 115 + 1
GUAACAUUCAUCGAACCCCAUUGACUCUUUUGGAGUCUUUGUGAUGAAGUAUGUGGAUAGAAAACCGCACAAACCGCAUGGGAUUACUACAUCAGAAGAAACCGCAAAAGGGGUU
.............((((((...(((((.....)))))(((.(((((.(((((((((........)))))....((.....))..)))).))))).)))...........)))))) ( -32.90)
>consensus
GAUACAUUCAUCGAACCCCAUUGACUCUUUUGGGGUCUUUGUGAUGAAGUAUGUGGAUAGAAAACCGCACAAACCGCAAGGGAUUACUACAUCAGAAGAAACCGCAAAAGGGGUU
.............((((((...(((((.....)))))(((.(((((.(((((((((........)))))....((....))...)))).))))).)))...........)))))) (-32.62 = -32.86 +   0.24)

alignment

secondary structure

dotplot

Window 0

Location	3,282,600 – 3,282,711
Length	111
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	97.48
Mean single sequence MFE	-25.84
Consensus MFE	-24.94
Energy contribution	-25.14
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.26
Structure conservation index	0.97
SVM decision value	0.60
SVM RNA-class probability	0.796600
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3282600 111 + 27905053
GUGAUGAAGCAUGUGGAUAGAGAACCGCACAAACCACAAGGGAUUACUACAUCAGAAGAAACCGCAAAAGGGGUUAAUGCACUCUUUGCACAUGGGACACAACAAGCCAAG
((..((...((((((.(.((((....(((..((((......(((......)))........((......))))))..))).)))).).))))))...))..))........ ( -23.20)
>DroSec_CAF1 35587 111 + 1
GUGAUGAAGUAUGUGGAUAGAAAACCGCACAAACCGCAAGGGAUUACUACAUCAGAAGAAACCGCAAAAGGGGUUAAUGCACUCUUUGCACAUGGGACACAACAAGCCAAU
.(((((.(((((((((........)))))....((....))...)))).))))).........(((((.(((((....)).))))))))...(((...........))).. ( -27.40)
>DroSim_CAF1 36636 111 + 1
GUGAUGAAGUAUGUGGAUAGAAAACCGCACAAACCGCAAGGGAUUACUACAUCAGAAGAAACCGCAAAAGGGGUUAAUGCACUCUUUGCACAUGGGACACAACAAGCCAAU
.(((((.(((((((((........)))))....((....))...)))).))))).........(((((.(((((....)).))))))))...(((...........))).. ( -27.40)
>DroEre_CAF1 37439 111 + 1
GUGAUGAAGUAUGUGGCUAGAAAACCGCACGAACCGCAAGGGAUUACUACAUCAGAAGAAACCGCAAAAGGGGUUAAUGCACUCUUUGCACAUGGGACACAACAAGCCAAU
.(((((.(((((((((........)))))....((....))...)))).))))).........(((((.(((((....)).))))))))...(((...........))).. ( -27.40)
>DroYak_CAF1 55119 111 + 1
GUGAUGAAGUAUGUGGAUAGAAAACCGCACAAACCGCAUGGGAUUACUACAUCAGAAGAAACCGCAAAAGGGGUUAAUGCACUCUUUGCACAUGGGACACAACAAGCCAAU
(((........(((((........)))))....((.((((((.((.((........)))).))(((((.(((((....)).)))))))).)))))).)))........... ( -23.80)
>consensus
GUGAUGAAGUAUGUGGAUAGAAAACCGCACAAACCGCAAGGGAUUACUACAUCAGAAGAAACCGCAAAAGGGGUUAAUGCACUCUUUGCACAUGGGACACAACAAGCCAAU
.(((((.(((((((((........)))))....((....))...)))).))))).........(((((.(((((....)).))))))))...(((...........))).. (-24.94 = -25.14 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:28 2006