Locus 7902

Sequence ID	3R_DroMel_CAF1
Location	21,186,608 – 21,186,702
Length	94
Max. P	0.962585

overview

Window 5

Location	21,186,608 – 21,186,702
Length	94
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	89.02
Mean single sequence MFE	-26.92
Consensus MFE	-23.24
Energy contribution	-23.24
Covariance contribution	0.00
Combinations/Pair	1.23
Mean z-score	-1.87
Structure conservation index	0.86
SVM decision value	1.54
SVM RNA-class probability	0.962585
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21186608 94 + 27905053
CCCACAGCAGGAUGUCGCUGUCGAUUUGGCAAACAGCGGAAGUGGCAUUCUCCUUCCGGUUGCCACUUUCUCAUCCUUCACCA-CCUUGCAAACA
......(.((((((..(((((...........)))))((((((((((....((....)).)))))))))).)))))).)....-........... ( -30.20)
>DroSec_CAF1 13287 94 + 1
CCCACAGCAGGAUGUCGCUGUCGAUUUGGCAAACAGCGGAAGUGGCGUUCUCCUUCCGGUUGCCACUUUCUCACCCUCCACCA-CCUUGCAAACA
......(((((.((..(((((...........)))))((((((((((....((....)).))))))))))...........))-.)))))..... ( -29.00)
>DroSim_CAF1 14112 87 + 1
CCCACAGCAGGAUGUCGCCGUCGAUUUGGCAAACAGCGGAAGUGGCGUUCUCCUUCCGGUUGCCACUUUCUCA-------CCA-CCUUGCAAACA
......(((((.((..((((......)))).....(.((((((((((....((....)).)))))))))).).-------.))-.)))))..... ( -29.80)
>DroEre_CAF1 14610 95 + 1
CCCACAGCAGGAUGUCGCCGUCGAUUUGGCAAACAGCGGAAGAGGCUUUCUCCUUCCGGCUGCCACUUUCUCACCCUUCCCCAGCUUUGCAAACA
..((.(((.((.....((((......))))...(((((((((..(....)..))))).))))..................)).))).))...... ( -23.70)
>DroYak_CAF1 13423 95 + 1
CCCACAGCAGGAUGUCGUCGUUGAUUUGGUAAACAGCGGAAGAGGCUUUCUCCUUCCGGCCGCCACUUUCUCACACUCCUUUAUCCUUGCAAACA
......((((((((..(..(((((..((((......((((((..(....)..))))))...)))).....))).))..)..))))).)))..... ( -21.90)
>consensus
CCCACAGCAGGAUGUCGCCGUCGAUUUGGCAAACAGCGGAAGUGGCGUUCUCCUUCCGGUUGCCACUUUCUCACCCUCCACCA_CCUUGCAAACA
......(((((.....((((......)))).....(.((((((((((....((....)).)))))))))).).............)))))..... (-23.24 = -23.24 +   0.00)

alignment

secondary structure

dotplot

Window 6

Location	21,186,608 – 21,186,702
Length	94
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	89.02
Mean single sequence MFE	-32.40
Consensus MFE	-24.28
Energy contribution	-26.08
Covariance contribution	1.80
Combinations/Pair	1.08
Mean z-score	-1.52
Structure conservation index	0.75
SVM decision value	-0.03
SVM RNA-class probability	0.516539
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21186608 94 - 27905053
UGUUUGCAAGG-UGGUGAAGGAUGAGAAAGUGGCAACCGGAAGGAGAAUGCCACUUCCGCUGUUUGCCAAAUCGACAGCGACAUCCUGCUGUGGG
..........(-..((..((((((...((((((((.((....))....)))))))).(((((((.........))))))).))))))))..)... ( -33.90)
>DroSec_CAF1 13287 94 - 1
UGUUUGCAAGG-UGGUGGAGGGUGAGAAAGUGGCAACCGGAAGGAGAACGCCACUUCCGCUGUUUGCCAAAUCGACAGCGACAUCCUGCUGUGGG
...........-(((..((.((((.(((.(((((..((....)).....)))))))))))).))..)))...(.((((((......)))))).). ( -37.50)
>DroSim_CAF1 14112 87 - 1
UGUUUGCAAGG-UGG-------UGAGAAAGUGGCAACCGGAAGGAGAACGCCACUUCCGCUGUUUGCCAAAUCGACGGCGACAUCCUGCUGUGGG
.((((((((.(-..(-------((.(((.(((((..((....)).....)))))))))))..)))).)))))(.((((((......)))))).). ( -30.80)
>DroEre_CAF1 14610 95 - 1
UGUUUGCAAAGCUGGGGAAGGGUGAGAAAGUGGCAGCCGGAAGGAGAAAGCCUCUUCCGCUGUUUGCCAAAUCGACGGCGACAUCCUGCUGUGGG
...........(((.((.((((((........(((((.(((((..(....)..))))))))))(((((........))))))))))).)).))). ( -32.20)
>DroYak_CAF1 13423 95 - 1
UGUUUGCAAGGAUAAAGGAGUGUGAGAAAGUGGCGGCCGGAAGGAGAAAGCCUCUUCCGCUGUUUACCAAAUCAACGACGACAUCCUGCUGUGGG
.....(((.((((...(..((.(((....((((((((.(((((..(....)..))))))))).))))....)))))..)...)))))))...... ( -27.60)
>consensus
UGUUUGCAAGG_UGGUGAAGGGUGAGAAAGUGGCAACCGGAAGGAGAAAGCCACUUCCGCUGUUUGCCAAAUCGACGGCGACAUCCUGCUGUGGG
............(((..((.((((.(((.(((((..((....)).....)))))))))))).))..)))...(.((((((......)))))).). (-24.28 = -26.08 +   1.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:36 2006