Locus 2869

Sequence ID	2L_DroMel_CAF1
Location	8,241,355 – 8,241,515
Length	160
Max. P	0.650533

overview

Window 5

Location	8,241,355 – 8,241,475
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	86.50
Mean single sequence MFE	-33.22
Consensus MFE	-22.94
Energy contribution	-24.34
Covariance contribution	1.40
Combinations/Pair	1.14
Mean z-score	-1.71
Structure conservation index	0.69
SVM decision value	-0.01
SVM RNA-class probability	0.528990
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8241355 120 - 22407834
AAGGACCUUCUGAGUAAACUCGAAGGACGCGAGAAGGUAGCCACUCUCAGUUUGGCUAAUCGCAUAUACGUGAACAAAAAGUUCCAGCUAGUACCGAGUUACAAUCAGAUGGUCAAGGAU
...((((.(((((...((((((....((((((.....((((((.........)))))).))))......(.((((.....))))).....))..))))))....))))).))))...... ( -37.30)
>DroSec_CAF1 19471 120 - 1
AAGGACCUUCUGAGCAAAAUCGAAGGACGCGAGAAGGUAGCCACUCUCAGUCUGGCUAAUCGCAUAUACGUGAACGAUAGGUUCACGCUAAUACCAAAGUACAAUCAGAUGGUCAAGGAU
...((((.(((((((....((....)).((((.....((((((.........)))))).))))......((((((.....))))))))...(((....)))...))))).))))...... ( -36.50)
>DroSim_CAF1 19613 120 - 1
AAGGACCUUCUGAGUAAAAUCGAAGGACGCGAGAAGGUAGCCACUCUCAGUCUGGCUAAUCGCAUAUACGUGAACGAUAAGUUCAAGCUAGUACCGAAGUACAAUCAGAUGGUCAAGGAU
...((((.((((((((...((....)).((((.....((((((.........)))))).))))...))).(((((.....))))).....((((....))))..))))).))))...... ( -36.40)
>DroEre_CAF1 20611 120 - 1
AAGGAUCUUCUGACUGAACUCGAAGGUCGUGAGAAAGUAGCCAUUCUUACUCUGGCGAACCGCAUAUACGUGAACAAUAAGAUAAAGCUAUUACCGCAGUACAAUCAGGUGGUCAAGGAU
...((((.(((((.((.(((((....((....)).((((((...(((((.....(((...)))......(....)..)))))....))))))..)).))).)).))))).))))...... ( -28.50)
>DroYak_CAF1 22972 120 - 1
AAGGAUCUUCUGACGGAGCUCGAAGGUCGCGAGAAGGUAGCCAUUCUAAGUCUGGCAAACCGCAUAUACGUGAACAAUAAGUUCGAACUAGUACCAGGGUACAAUCAGAUAGUGAAGGAU
....((..(((((..(((((......(((((....(((.((((.........))))..))).......)))))......)))))......((((....))))..)))))..))....... ( -27.40)
>consensus
AAGGACCUUCUGAGUAAACUCGAAGGACGCGAGAAGGUAGCCACUCUCAGUCUGGCUAAUCGCAUAUACGUGAACAAUAAGUUCAAGCUAGUACCGAAGUACAAUCAGAUGGUCAAGGAU
...((((.(((((...........((((((((.....((((((.........)))))).))))......(....).....))))......((((....))))..))))).))))...... (-22.94 = -24.34 +   1.40)

alignment

secondary structure

dotplot

Window 6

Location	8,241,395 – 8,241,515
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	87.58
Mean single sequence MFE	-32.90
Consensus MFE	-25.96
Energy contribution	-25.76
Covariance contribution	-0.20
Combinations/Pair	1.22
Mean z-score	-1.58
Structure conservation index	0.79
SVM decision value	0.24
SVM RNA-class probability	0.650533
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8241395 120 - 22407834
GAAACUGCCCGAUGACAAAAAGGAAGUGGCAGCCAAAUACAAGGACCUUCUGAGUAAACUCGAAGGACGCGAGAAGGUAGCCACUCUCAGUUUGGCUAAUCGCAUAUACGUGAACAAAAA
.........((((..((((..(..((((((.(((...........(((((.(((....)))))))).(....)..))).))))))..)..))))....)))).................. ( -34.80)
>DroSec_CAF1 19511 120 - 1
GAAACUGCCCGACGACAAAAAGGAAGUGGCAGCCAAAUACAAGGACCUUCUGAGCAAAAUCGAAGGACGCGAGAAGGUAGCCACUCUCAGUCUGGCUAAUCGCAUAUACGUGAACGAUAG
......(((.(((........(..((((((..((........))(((((((..((....((....)).)).))))))).))))))..).))).)))...((((......))))....... ( -35.10)
>DroSim_CAF1 19653 120 - 1
GAAACUGCCCGACGACAAAAAGGAAGUGGCAGCCAAAUACAAGGACCUUCUGAGUAAAAUCGAAGGACGCGAGAAGGUAGCCACUCUCAGUCUGGCUAAUCGCAUAUACGUGAACGAUAA
......(((.(((........(..((((((.(((...........(((((.((......))))))).(....)..))).))))))..).))).)))...((((......))))....... ( -34.70)
>DroEre_CAF1 20651 120 - 1
GGGACUGCCCGAUAACAGGGAGGAGGUGGCAGCCAAAACCAAGGAUCUUCUGACUGAACUCGAAGGUCGUGAGAAAGUAGCCAUUCUUACUCUGGCGAACCGCAUAUACGUGAACAAUAA
(((....))).....((.(......((((..((((........(((((((.((......)))))))))(((((((........)))))))..))))...)))).....).))........ ( -32.70)
>DroYak_CAF1 23012 120 - 1
GAAACUGCCCGAGGACAAAAAGCAAGUGGCAGCCAAGUACAAGGAUCUUCUGACGGAGCUCGAAGGUCGCGAGAAGGUAGCCAUUCUAAGUCUGGCAAACCGCAUAUACGUGAACAAUAA
.....((((...((((....((..((((((.(((.........((.((((....)))).)).....((....)).))).))))))))..))))))))...(((......)))........ ( -27.20)
>consensus
GAAACUGCCCGACGACAAAAAGGAAGUGGCAGCCAAAUACAAGGACCUUCUGAGUAAACUCGAAGGACGCGAGAAGGUAGCCACUCUCAGUCUGGCUAAUCGCAUAUACGUGAACAAUAA
......(((.(((........(..((((((.(((...........(((((.((......))))))).(....)..))).))))))..).))).)))....(((......)))........ (-25.96 = -25.76 +  -0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:15 2006