Locus 3065

Sequence ID	3R_DroMel_CAF1
Location	8,100,543 – 8,100,703
Length	160
Max. P	0.997743

overview

Window 8

Location	8,100,543 – 8,100,663
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.83
Mean single sequence MFE	-28.00
Consensus MFE	-26.90
Energy contribution	-27.06
Covariance contribution	0.16
Combinations/Pair	1.04
Mean z-score	-2.03
Structure conservation index	0.96
SVM decision value	2.92
SVM RNA-class probability	0.997743
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8100543 120 + 27905053
AUUUCACACAUGGGCGCUAAUGAAUUUAAUGAAGUCAUUUUUCUUUAACCGAUUUACAAAACUACUUACAACUGGCGGACCAGUCUGUCCGUCGCCCCAGAACAAGCGAGUUCAUAAUUU
..........((((.((...((((((...(((((........)))))...)))))).................(((((((......)))))))))))))((((......))))....... ( -27.70)
>DroSec_CAF1 52201 120 + 1
AUUUCACACAUGGGCGCUAAUGAAUUUAAUGAAGUCAUUUUUCUUUAACCGAUUUACAAAACUACUUACAACUGGCGGACCAGUCAGUCCGUCGCCCCAGAACAAGGGAAUUCAUAAUUU
(((((.....((((.((...((((((...(((((........)))))...)))))).................(((((((......))))))))))))).......)))))......... ( -26.00)
>DroSim_CAF1 24266 120 + 1
AUUUCACACAUGGGCGCUAAUGAAUUUAAUGAAGUCAUUUUUCUUUAACCGAUUUACAAAACUACUUACAACUGGCGGACCAGUCAGUCAGUCGCCCCAGAACAAGCGAGUUCAUAAUUU
...........(((((((..((((((...(((((........)))))...))))))..............((((((......)))))).)).)))))..((((......))))....... ( -25.10)
>DroEre_CAF1 27269 120 + 1
AUUUCACACAUGGGCGCUAAUGAAUUUAAUGAAGUCAUUUUUCUUUAACCGAUUUACAAAACUACUUACAACUGGCGGACCAGUGAGUCCGCCGCCCCAGAACAAGCGAGUUCAUAAUUU
..........((((.((...((((((...(((((........)))))...)))))).................(((((((......)))))))))))))((((......))))....... ( -30.60)
>DroYak_CAF1 20633 120 + 1
AUUUCACACAUGGGCGCUAAUGAAUUUAAUGAAGUCAUUUUUCUUUAACCGAUUUACAAAACUACUUACAACUGGCGGACCAGUCAGUCCGCCGCCCCAGAACAAGCGAGUUCAUAAUUU
..........((((.((...((((((...(((((........)))))...)))))).................(((((((......)))))))))))))((((......))))....... ( -30.60)
>consensus
AUUUCACACAUGGGCGCUAAUGAAUUUAAUGAAGUCAUUUUUCUUUAACCGAUUUACAAAACUACUUACAACUGGCGGACCAGUCAGUCCGUCGCCCCAGAACAAGCGAGUUCAUAAUUU
..........((((.((...((((((...(((((........)))))...)))))).................(((((((......)))))))))))))((((......))))....... (-26.90 = -27.06 +   0.16)

alignment

secondary structure

dotplot

Window 9

Location	8,100,583 – 8,100,703
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.67
Mean single sequence MFE	-36.80
Consensus MFE	-31.02
Energy contribution	-30.86
Covariance contribution	-0.16
Combinations/Pair	1.09
Mean z-score	-1.88
Structure conservation index	0.84
SVM decision value	1.14
SVM RNA-class probability	0.921329
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8100583 120 - 27905053
UGGCCGAGAUCUCUUUGUUAGCACCAUGAUUAAUGAUGCAAAAUUAUGAACUCGCUUGUUCUGGGGCGACGGACAGACUGGUCCGCCAGUUGUAAGUAGUUUUGUAAAUCGGUUAAAGAA
(((((((((((....((....))....)))).....(((((((((((..((((((((......))))))......((((((....))))))))..)))))))))))..)))))))..... ( -34.70)
>DroSec_CAF1 52241 120 - 1
UGGCCGAGAUCUCUUUGUUAGCACCAUGAUUAAUGAUGCAAAAUUAUGAAUUCCCUUGUUCUGGGGCGACGGACUGACUGGUCCGCCAGUUGUAAGUAGUUUUGUAAAUCGGUUAAAGAA
(((((((((((....((....))....)))).....(((((((((((....(((.(((((....))))).)))..((((((....))))))....)))))))))))..)))))))..... ( -34.20)
>DroSim_CAF1 24306 120 - 1
UGGCCGAGAUCUCUUUGUUAGCACCAUGAUUAAUGAUGCAAAAUUAUGAACUCGCUUGUUCUGGGGCGACUGACUGACUGGUCCGCCAGUUGUAAGUAGUUUUGUAAAUCGGUUAAAGAA
(((((((((((....((....))....)))).....(((((((((((..((((((((......))))))......((((((....))))))))..)))))))))))..)))))))..... ( -34.60)
>DroEre_CAF1 27309 120 - 1
UGGCCGAGAUCUCUUUGUUAGGACCGUGAUUAAUGAUGCAAAAUUAUGAACUCGCUUGUUCUGGGGCGGCGGACUCACUGGUCCGCCAGUUGUAAGUAGUUUUGUAAAUCGGUUAAAGAA
(((((((((((((((....))))....)))).....(((((((((((((((......))))((.(((((((((((....)))))))).))).)).)))))))))))..)))))))..... ( -39.60)
>DroYak_CAF1 20673 120 - 1
UGGCCGAGAUCUCUUUGUUAGGGCCAUGAUUAAUGAUGCAAAAUUAUGAACUCGCUUGUUCUGGGGCGGCGGACUGACUGGUCCGCCAGUUGUAAGUAGUUUUGUAAAUCGGUUAAAGAA
(((((..(((......)))..)))))((((..((..(((((((((((((((......))))((.(((((((((((....)))))))).))).)).))))))))))).))..))))..... ( -40.90)
>consensus
UGGCCGAGAUCUCUUUGUUAGCACCAUGAUUAAUGAUGCAAAAUUAUGAACUCGCUUGUUCUGGGGCGACGGACUGACUGGUCCGCCAGUUGUAAGUAGUUUUGUAAAUCGGUUAAAGAA
(((((((.................(((.....))).(((((((((((..((((((((......))))))......((((((....))))))))..)))))))))))..)))))))..... (-31.02 = -30.86 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:07 2006