Locus 6792

Sequence ID	3L_DroMel_CAF1
Location	18,241,706 – 18,241,841
Length	135
Max. P	0.823120

overview

Window 4

Location	18,241,706 – 18,241,814
Length	108
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	97.53
Mean single sequence MFE	-32.25
Consensus MFE	-28.09
Energy contribution	-29.12
Covariance contribution	1.03
Combinations/Pair	1.03
Mean z-score	-1.68
Structure conservation index	0.87
SVM decision value	0.69
SVM RNA-class probability	0.823120
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18241706 108 + 23771897
CGCAGGUUUUAAUAUUACAAAAUGUUGAGCUUCUCUUUGGGAGCUGUUUGUUUGGUUUGGGUUUCGGCUCGGAUUGUGGGCUGAGCUCCUGUGAAAACAAACAACAGU
........((((((((....))))))))((((((....))))))(((((((((.....((..(((((((((.....)))))))))..)).....)))))))))..... ( -33.20)
>DroSec_CAF1 24401 108 + 1
CGCAGGUUUUAAUAUUACAAAAUGUUGAGCUUCUCUUUGGGAGCUGUUUGUUUGGUUUGGGUUUCGGCUCGGAUUGUGGGCUGAGCUCCUGUGAAAACAAACAACAGU
........((((((((....))))))))((((((....))))))(((((((((.....((..(((((((((.....)))))))))..)).....)))))))))..... ( -33.20)
>DroSim_CAF1 30366 108 + 1
CGCAGGUUUUAAUAUUACAAAAUGUUGAGCUUCUCUUUGGGAGCUGUUUGUUUGGUUUGGGUUUCGGCUCGGAUUGUGGGCUGAGCUCCUGUGAAAACAAACAACAGU
........((((((((....))))))))((((((....))))))(((((((((.....((..(((((((((.....)))))))))..)).....)))))))))..... ( -33.20)
>DroEre_CAF1 24623 108 + 1
CGCAGGUUUUAAUAUUACAAAAUGUUGAGCUUCUCUUUGGGAGCUGUUUGUUUGGUUUGGGUUUCGGCUCGGAUUGUGGGCUGAGCUCCUGUGAAAACAAACAACAGU
........((((((((....))))))))((((((....))))))(((((((((.....((..(((((((((.....)))))))))..)).....)))))))))..... ( -33.20)
>DroYak_CAF1 31621 108 + 1
CGCAGGUUUUAAUAUUACAAAAUGCUGAGCUUCUCUUUGGGAGCUGUUUGUUUGGUUUGGGUUUCGGCUCGGAUUGUGGGCUGAGCUCCUGUGAAAACAAACAACAGU
.......................(((((((((((....)))))))((((((((.....((..(((((((((.....)))))))))..)).....))))))))..)))) ( -34.10)
>DroAna_CAF1 28371 107 + 1
CGCAGGUUUUAAUAUUACAAAAUGUUCAGCUUCUCUUUG-GCGCUGUUUGUUUGGUUUGAGUUUCGGGCCGGAUUGUGGGCUCAGCUCCUGUGAAAACAAACAACAGU
((((((........((((((......((((.((.....)-).))))....(((((((((.....)))))))))))))))........))))))............... ( -26.59)
>consensus
CGCAGGUUUUAAUAUUACAAAAUGUUGAGCUUCUCUUUGGGAGCUGUUUGUUUGGUUUGGGUUUCGGCUCGGAUUGUGGGCUGAGCUCCUGUGAAAACAAACAACAGU
........((((((((....))))))))((((((....))))))(((((((((.....(((.(((((((((.....))))))))).))).....)))))))))..... (-28.09 = -29.12 +   1.03)

alignment

secondary structure

dotplot

Window 5

Location	18,241,742 – 18,241,841
Length	99
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	97.64
Mean single sequence MFE	-23.50
Consensus MFE	-20.89
Energy contribution	-20.95
Covariance contribution	0.06
Combinations/Pair	1.08
Mean z-score	-1.28
Structure conservation index	0.89
SVM decision value	0.23
SVM RNA-class probability	0.643023
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18241742 99 - 23771897
GCAUGCCCCAGGUAUUAUGCGGGUAUUACUGUUGUUUGUUUUCACAGGAGCUCAGCCCACAAUCCGAGCCGAAACCCAAACCAAACAAACAGCUCCCAA
..((((((((.......)).))))))....(((((((((((.....((.((((............)))).....))......)))))))))))...... ( -22.60)
>DroSec_CAF1 24437 99 - 1
GCAUGCCCCAGGUAUUAUGCGGGUAUUACUGUUGUUUGUUUUCACAGGAGCUCAGCCCACAAUCCGAGCCGAAACCCAAACCAAACAAACAGCUCCCAA
..((((((((.......)).))))))....(((((((((((.....((.((((............)))).....))......)))))))))))...... ( -22.60)
>DroSim_CAF1 30402 99 - 1
GCAUGCCCCAGGUAUUAUGCGGGUAUUACUGUUGUUUGUUUUCACAGGAGCUCAGCCCACAAUCCGAGCCGAAACCCAAACCAAACAAACAGCUCCCAA
..((((((((.......)).))))))....(((((((((((.....((.((((............)))).....))......)))))))))))...... ( -22.60)
>DroEre_CAF1 24659 99 - 1
GCAUGCCCCAGGUAUUAUGCGGGUAUUACUGUUGUUUGUUUUCACAGGAGCUCAGCCCACAAUCCGAGCCGAAACCCAAACCAAACAAACAGCUCCCAA
..((((((((.......)).))))))....(((((((((((.....((.((((............)))).....))......)))))))))))...... ( -22.60)
>DroYak_CAF1 31657 99 - 1
GCAUGCCCCAGGUAUUAUGCGGGUAUUACUGUUGUUUGUUUUCACAGGAGCUCAGCCCACAAUCCGAGCCGAAACCCAAACCAAACAAACAGCUCCCAA
..((((((((.......)).))))))....(((((((((((.....((.((((............)))).....))......)))))))))))...... ( -22.60)
>DroAna_CAF1 28407 98 - 1
GCAUACCCCAGGUAUUAUGCGGGUAUUACUGUUGUUUGUUUUCACAGGAGCUGAGCCCACAAUCCGGCCCGAAACUCAAACCAAACAAACAGCGC-CAA
((((((((((.......)).))))))....(((((((((((......(((.((.(((........))).))...))).....)))))))))))))-... ( -28.00)
>consensus
GCAUGCCCCAGGUAUUAUGCGGGUAUUACUGUUGUUUGUUUUCACAGGAGCUCAGCCCACAAUCCGAGCCGAAACCCAAACCAAACAAACAGCUCCCAA
..((((((((.......)).))))))....(((((((((((.....((...((.((.(.......).)).))...)).....)))))))))))...... (-20.89 = -20.95 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:05 2006