Locus 2694

Sequence ID	2R_DroMel_CAF1
Location	9,507,596 – 9,507,810
Length	214
Max. P	0.971231

overview

Window 7

Location	9,507,596 – 9,507,714
Length	118
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	94.54
Mean single sequence MFE	-26.65
Consensus MFE	-24.06
Energy contribution	-24.38
Covariance contribution	0.31
Combinations/Pair	1.03
Mean z-score	-2.30
Structure conservation index	0.90
SVM decision value	1.51
SVM RNA-class probability	0.960086
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9507596 118 + 20766785
ACGAGCAGAGGAUUUUUAAACUGCAGCUCUAGCAUUUACCGUUAGGGCAAGAGUAAACACAUUCAACAUGUUGCAGUCACUAAAAACUAAAACAAAAGCAAAGCGGAUCACUCUCUUU--
..(((.(((((((((....((((((((((((((.......))))))))..((((......)))).......))))))....................((...))))))).))))))).-- ( -28.10)
>DroSec_CAF1 4627 118 + 1
ACGAGCAGAGGAUUUUUAAACUGCAGCUCUAGCAUUUACCGUUAGGGCAAGAGUAAACACAUUCAACAUGUUGCAGUCACUAAAAACUAAAACAAAAGCAAAGCGGAUCACUCUCUUU--
..(((.(((((((((....((((((((((((((.......))))))))..((((......)))).......))))))....................((...))))))).))))))).-- ( -28.10)
>DroSim_CAF1 4626 118 + 1
ACGAGCAGAGGAUUUUUAAACUGCAGCUCUAGCAUUUACCGUUAGGGCAAGAGUAAACACAUUCAACAUGUUGCAGUCACUAAAAACUAAAACAAAAGCAAAGCGGAUCACUCUCUUU--
..(((.(((((((((....((((((((((((((.......))))))))..((((......)))).......))))))....................((...))))))).))))))).-- ( -28.10)
>DroYak_CAF1 4605 114 + 1
ACGAGCAGAGGACUUUUAAAUUGCAGCACUAGCAUUUACCGUUAGGGCA------AACACAUUCAACAUGUUGCAGUCACUAAAAACUAAAACAAAAGCAAAACGGAUCACUCUCUCUUG
..(((.((((((((.((...((((.((.(((((.......))))).)).------.............((((..(((........)))..))))...)))))).)).)).)))))))... ( -22.30)
>consensus
ACGAGCAGAGGAUUUUUAAACUGCAGCUCUAGCAUUUACCGUUAGGGCAAGAGUAAACACAUUCAACAUGUUGCAGUCACUAAAAACUAAAACAAAAGCAAAGCGGAUCACUCUCUUU__
..(((.(((((((((......(((.((((((((.......))))))))....................((((..(((........)))..))))...)))....))))).)))))))... (-24.06 = -24.38 +   0.31)

alignment

secondary structure

dotplot

Window 8

Location	9,507,676 – 9,507,772
Length	96
Sequences	3
Columns	96
Reading direction	forward
Mean pairwise identity	99.31
Mean single sequence MFE	-19.31
Consensus MFE	-19.31
Energy contribution	-19.31
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.05
Structure conservation index	1.00
SVM decision value	1.13
SVM RNA-class probability	0.920228
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9507676 96 + 20766785
UAAAAACUAAAACAAAAGCAAAGCGGAUCACUCUCUUUCUCAUUCUCUCAUUCGCUCUCUUUGAGUUAUAAGUGUUUUUGCCGUGUUUUGUUUUGA
.......((((((((((.((..(((((.((((......((((...................)))).....))))..)))))..)))))))))))). ( -19.31)
>DroSec_CAF1 4707 96 + 1
UAAAAACUAAAACAAAAGCAAAGCGGAUCACUCUCUUUCUCAUUCUCUCAUUCGCUCUCUUUGAGUUUUAAGUGUUUUUGCCGUGUUUUGUUUUGA
.......((((((((((.((..(((((.((((......((((...................)))).....))))..)))))..)))))))))))). ( -19.31)
>DroSim_CAF1 4706 96 + 1
UAAAAACUAAAACAAAAGCAAAGCGGAUCACUCUCUUUCUCAUUCUCUCAUUCGCUCUCUUUGAGUUUUAAGUGUUUUUGCCGUGUUUUGUUUUGA
.......((((((((((.((..(((((.((((......((((...................)))).....))))..)))))..)))))))))))). ( -19.31)
>consensus
UAAAAACUAAAACAAAAGCAAAGCGGAUCACUCUCUUUCUCAUUCUCUCAUUCGCUCUCUUUGAGUUUUAAGUGUUUUUGCCGUGUUUUGUUUUGA
.......((((((((((.((..(((((.((((......((((...................)))).....))))..)))))..)))))))))))). (-19.31 = -19.31 +   0.00)

alignment

secondary structure

dotplot

Window 9

Location	9,507,714 – 9,507,810
Length	96
Sequences	3
Columns	96
Reading direction	forward
Mean pairwise identity	97.22
Mean single sequence MFE	-26.90
Consensus MFE	-26.31
Energy contribution	-25.87
Covariance contribution	-0.44
Combinations/Pair	1.07
Mean z-score	-2.50
Structure conservation index	0.98
SVM decision value	1.67
SVM RNA-class probability	0.971231
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9507714 96 + 20766785
CUCAUUCUCUCAUUCGCUCUCUUUGAGUUAUAAGUGUUUUUGCCGUGUUUUGUUUUGAUUUUUGCACAUACACGAAGACAUCGAGAGAGGAGAGCG
(((.(((((((....((((.....)))).....(((((((...(((((..(((..........)))...)))))))))))).)))))))))).... ( -26.10)
>DroSec_CAF1 4745 96 + 1
CUCAUUCUCUCAUUCGCUCUCUUUGAGUUUUAAGUGUUUUUGCCGUGUUUUGUUUUGAUUUUUGCACACACACAAAGACAUCGAGAGAGGAGAGCG
(((.(((((((....((((.....)))).....(((((((((..((((..(((..........))).)))).))))))))).)))))))))).... ( -28.00)
>DroSim_CAF1 4744 96 + 1
CUCAUUCUCUCAUUCGCUCUCUUUGAGUUUUAAGUGUUUUUGCCGUGUUUUGUUUUGAUUUUUGCCCACACACAAAGACAUCGAGAGAGGAGAGCG
(((.(((((((....((((.....)))).....(((((((((..((((...((..........))..)))).))))))))).)))))))))).... ( -26.60)
>consensus
CUCAUUCUCUCAUUCGCUCUCUUUGAGUUUUAAGUGUUUUUGCCGUGUUUUGUUUUGAUUUUUGCACACACACAAAGACAUCGAGAGAGGAGAGCG
(((.(((((((....((((.....)))).....(((((((((..((((...((..........))..)))).))))))))).)))))))))).... (-26.31 = -25.87 +  -0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:38 2006