Locus 4734

Sequence ID	2L_DroMel_CAF1
Location	13,554,956 – 13,555,051
Length	95
Max. P	0.998663

overview

Window 6

Location	13,554,956 – 13,555,051
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	94.53
Mean single sequence MFE	-22.92
Consensus MFE	-20.64
Energy contribution	-21.24
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.19
Structure conservation index	0.90
SVM decision value	3.18
SVM RNA-class probability	0.998663
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13554956 95 + 22407834
AUAAGACCAAGUCAAAGAACAUUUUCGUGCUGGCAUUCGCUUUUCGCAUUCGCAUUCAACUGCAGAUUCACAUUCAUUUGACUCGGGCACACAAU
......((.((((((((((.....(((((..(((....)))...)))....(((......))).))......))).))))))).))......... ( -19.50)
>DroSec_CAF1 16239 95 + 1
AUAAGACCAAGUCAAAGAACAUUUUCGUGCUGGCAUUUGCUUUUCGCAUUCGCAUUCAACUGCAGAUUCACAUUCAUUUGACUUGGGCACACAAU
......(((((((((((((.....(((((..(((....)))...)))....(((......))).))......))).))))))))))......... ( -23.90)
>DroSim_CAF1 23745 95 + 1
AUAAGACCAAGUCAAAGAACAUUUUCGUGCUGGCAUUCGCUUUUCGCAUUCGCAUUCAACUGCAGAUUCAUAUUCAUUUGACUUGGGCACACAAU
......(((((((((((((.((..(((((..(((....)))...)))....(((......))).))...)).))).))))))))))......... ( -23.80)
>DroEre_CAF1 16184 95 + 1
AUAAGACCAAGUCAAAGAACAUUUUCGUGCUGGCACUCGCUUUUCGCAUUCGCAUUCAAGUGCAGAUUCACAUUCAUUUGACUUGGGCACAGAAU
......(((((((((((((.....(((((..(((....)))...)))....((((....)))).))......))).))))))))))......... ( -25.10)
>DroYak_CAF1 14419 89 + 1
AUAAGACCAAGUCAAAGAACAUUUUCGUGCUGGCAUUCGCUUUUCGC------AUUCAAGUGCAGAUUCACAUUCAUUUGACUUGGGCACAGAAU
......(((((((((((((.......(((..(((....)))...)))------......(((......))).))).))))))))))......... ( -22.30)
>consensus
AUAAGACCAAGUCAAAGAACAUUUUCGUGCUGGCAUUCGCUUUUCGCAUUCGCAUUCAACUGCAGAUUCACAUUCAUUUGACUUGGGCACACAAU
......(((((((((((((.....(((((..(((....)))...)))....(((......))).))......))).))))))))))......... (-20.64 = -21.24 +   0.60)

alignment

secondary structure

dotplot

Window 7

Location	13,554,956 – 13,555,051
Length	95
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	94.53
Mean single sequence MFE	-25.33
Consensus MFE	-22.82
Energy contribution	-23.18
Covariance contribution	0.36
Combinations/Pair	1.10
Mean z-score	-1.85
Structure conservation index	0.90
SVM decision value	2.32
SVM RNA-class probability	0.992296
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13554956 95 - 22407834
AUUGUGUGCCCGAGUCAAAUGAAUGUGAAUCUGCAGUUGAAUGCGAAUGCGAAAAGCGAAUGCCAGCACGAAAAUGUUCUUUGACUUGGUCUUAU
.........((((((((((.((((((...((((((.(((....))).))))....((........))..))..))))))))))))))))...... ( -24.20)
>DroSec_CAF1 16239 95 - 1
AUUGUGUGCCCAAGUCAAAUGAAUGUGAAUCUGCAGUUGAAUGCGAAUGCGAAAAGCAAAUGCCAGCACGAAAAUGUUCUUUGACUUGGUCUUAU
.........((((((((((.((((((...(((((.((.....))...(((.....))).......))).))..))))))))))))))))...... ( -25.10)
>DroSim_CAF1 23745 95 - 1
AUUGUGUGCCCAAGUCAAAUGAAUAUGAAUCUGCAGUUGAAUGCGAAUGCGAAAAGCGAAUGCCAGCACGAAAAUGUUCUUUGACUUGGUCUUAU
.........((((((((((.((((((...((((((.(((....))).))))....((........))..))..))))))))))))))))...... ( -25.50)
>DroEre_CAF1 16184 95 - 1
AUUCUGUGCCCAAGUCAAAUGAAUGUGAAUCUGCACUUGAAUGCGAAUGCGAAAAGCGAGUGCCAGCACGAAAAUGUUCUUUGACUUGGUCUUAU
.........((((((((((.((((((....(((((((((....((....)).....)))))).))).......))))))))))))))))...... ( -28.50)
>DroYak_CAF1 14419 89 - 1
AUUCUGUGCCCAAGUCAAAUGAAUGUGAAUCUGCACUUGAAU------GCGAAAAGCGAAUGCCAGCACGAAAAUGUUCUUUGACUUGGUCUUAU
.........((((((((((.((((((...(((((.......(------((.....))).......))).))..))))))))))))))))...... ( -23.34)
>consensus
AUUGUGUGCCCAAGUCAAAUGAAUGUGAAUCUGCAGUUGAAUGCGAAUGCGAAAAGCGAAUGCCAGCACGAAAAUGUUCUUUGACUUGGUCUUAU
.........((((((((((.((((((...(((((...((...(((..(((.....)))..)))))))).))..))))))))))))))))...... (-22.82 = -23.18 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:50 2006