Locus 8046

Sequence ID	3L_DroMel_CAF1
Location	21,216,033 – 21,216,193
Length	160
Max. P	0.964856

overview

Window 6

Location	21,216,033 – 21,216,153
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	92.08
Mean single sequence MFE	-51.43
Consensus MFE	-44.30
Energy contribution	-45.18
Covariance contribution	0.88
Combinations/Pair	1.10
Mean z-score	-2.39
Structure conservation index	0.86
SVM decision value	1.57
SVM RNA-class probability	0.964856
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21216033 120 + 23771897
GCUUAGUAAUCUAGUACUGGUUGUGGCGCAGAACGCCAUUGGGACUGGGCUGCGGGGAGUAGUCCGGCACGGGGAAUCCCGAGGUGGCCACCACAAUGGUCUCCAUGGGAUUCUGCGAAG
..((((((......))))))..((((((.....))))))...(.(((((((((.....)))))))))).((.(((((((((.((.(((((......))))).)).))))))))).))... ( -52.90)
>DroSim_CAF1 83113 120 + 1
GCUUAGUAAUCUAGUACUGGUGUUGGCGCAGAAUGCCAUUGGGGCUGGGCUGCGGGGAGUAGUCCGGCACGGGGAAUCCCGAGGUGGCCACCACUAUGGUCUCCAUGGGAUUCUGCGAGG
(((.((((......))))))).....((((((((.((((....((((((((((.....)))))))))).((((....)))).((.(((((......))))).)))))).))))))))... ( -54.50)
>DroEre_CAF1 35514 120 + 1
GCUUAAUAAUCUAGUACUGGUUGGUGCGCAGAAUGCCAUUCGGGCUGGGCUGCGGGGAAUAGUCCGGUACGGGGAAUCCCGAGGUGGCCACCACAAUGGUUUCCAUGGGAUUCUGCGAGG
.(((.........((((((((((.(.(((((...(((.....)))....))))).)...))).)))))))(.(((((((((.((..((((......))))..)).))))))))).)))). ( -49.70)
>DroYak_CAF1 142273 120 + 1
GCUUAGUAAUCUAGUAUUGGUGGGGACGAAGAAUGCCAUUGGGGCUGGGCUGCGGGGAAUAGUCCGGUACGGGGAAUCCCGAGGUGGCCACCACAAUGGUCUCCGUGGGAUUCUGCGACG
.....(((..(((((.(..((((.(........).))))..).)))))..)))..(((....))).((.((.(((((((((.((.(((((......))))).)).))))))))).)))). ( -48.60)
>consensus
GCUUAGUAAUCUAGUACUGGUGGGGGCGCAGAAUGCCAUUGGGGCUGGGCUGCGGGGAAUAGUCCGGCACGGGGAAUCCCGAGGUGGCCACCACAAUGGUCUCCAUGGGAUUCUGCGAGG
..((((((......))))))......((((((((.((((....((((((((((.....)))))))))).((((....)))).((.(((((......))))).)))))).))))))))... (-44.30 = -45.18 +   0.88)

alignment

secondary structure

dotplot

Window 7

Location	21,216,073 – 21,216,193
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	93.19
Mean single sequence MFE	-54.60
Consensus MFE	-52.72
Energy contribution	-52.10
Covariance contribution	-0.62
Combinations/Pair	1.12
Mean z-score	-1.37
Structure conservation index	0.97
SVM decision value	0.27
SVM RNA-class probability	0.663918
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21216073 120 + 23771897
GGGACUGGGCUGCGGGGAGUAGUCCGGCACGGGGAAUCCCGAGGUGGCCACCACAAUGGUCUCCAUGGGAUUCUGCGAAGAUUGCUUCAGCGGGCGACUUUGCUGCGGAUUCGGAGGCGG
....((((((((((((((((.(((((.(..(.(((((((((.((.(((((......))))).)).))))))))).)((((....)))).)))))).))))).)))))).)))))...... ( -55.10)
>DroSim_CAF1 83153 120 + 1
GGGGCUGGGCUGCGGGGAGUAGUCCGGCACGGGGAAUCCCGAGGUGGCCACCACUAUGGUCUCCAUGGGAUUCUGCGAGGAUUGCUUCAGCGGGCGACUUUGCUGCGGGUUCGGAGGCGG
...((((((((((.....)))))))))).((.(((((((((.((.(((((......))))).)).))))))))).)).....(((((((((((....))..))).((....)))))))). ( -56.70)
>DroEre_CAF1 35554 120 + 1
CGGGCUGGGCUGCGGGGAAUAGUCCGGUACGGGGAAUCCCGAGGUGGCCACCACAAUGGUUUCCAUGGGAUUCUGCGAGGCUUGUCUCAGCGGGCGGCUUUGCUGCGGAUUCGGAGGCGG
((..(((((((((((.(((..(((((.(..(.(((((((((.((..((((......))))..)).))))))))).)((((....))))).)))))...))).)))))).)))))...)). ( -53.50)
>DroYak_CAF1 142313 120 + 1
GGGGCUGGGCUGCGGGGAAUAGUCCGGUACGGGGAAUCCCGAGGUGGCCACCACAAUGGUCUCCGUGGGAUUCUGCGACGAUGGCUUCAGCGGGCGACUUUGCUGCGGAUUCGGAGGAGG
....(((((((((((.(((..(((((((.((.(((((((((.((.(((((......))))).)).))))))))).))))((.....))..)))))...))).)))))).)))))...... ( -53.10)
>consensus
GGGGCUGGGCUGCGGGGAAUAGUCCGGCACGGGGAAUCCCGAGGUGGCCACCACAAUGGUCUCCAUGGGAUUCUGCGAGGAUUGCUUCAGCGGGCGACUUUGCUGCGGAUUCGGAGGCGG
....(((((((((((.(((..(((((....(.(((((((((.((.(((((......))))).)).))))))))).)((((....))))..)))))...))).)))))).)))))...... (-52.72 = -52.10 +  -0.62)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:46 2006