Locus 7854

Sequence ID	X_DroMel_CAF1
Location	19,565,346 – 19,565,466
Length	120
Max. P	0.792280

overview

Window 1

Location	19,565,346 – 19,565,466
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	94.06
Mean single sequence MFE	-31.45
Consensus MFE	-29.46
Energy contribution	-29.77
Covariance contribution	0.31
Combinations/Pair	1.11
Mean z-score	-0.91
Structure conservation index	0.94
SVM decision value	0.07
SVM RNA-class probability	0.571080
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19565346 120 + 22224390
CCAAGUACUUCACCACCACCAAGAAGGGCGAGAUCUUCGAGCUCAAGUCGGAGCUGAAUAACGACAAGAAGGAGAAGAAGAAGGAGGCGGUGAAGAAGGUGAUCGCCAGCAUGACCGUGG
(((....(((((((.((.((..(((((......))))).(((((......)))))...........................)).)).)))))))..(((.(((....).)).))).))) ( -34.80)
>DroSec_CAF1 29234 120 + 1
CCAAGUACUUCACCACCACCAAGAAGGGCGAGAUCUUCGAGCUCAAGUCGGAGCUGAAUAACGACAAGAAGGAGAAGAAGAAGGAGGCGGUGAAGAAGGUGAUCGCCAGCAUGACCGUGG
(((....(((((((.((.((..(((((......))))).(((((......)))))...........................)).)).)))))))..(((.(((....).)).))).))) ( -34.80)
>DroEre_CAF1 29079 120 + 1
CCAAGUACUUCACCACCACCAAGAAGGGCGAGAUCUUCGAGCUGAAGUCGGAGCUUAACAAUGACAAGAAGGAGAAAAAGAAGGAGGCGGUGAAGAAGGUGAUCGCUAGCAUGACCGUGG
(((....(((((((.((.((..(((((......)))))(((((........)))))..........................)).)).)))))))..(((.(((....).)).))).))) ( -32.70)
>DroWil_CAF1 32714 120 + 1
CCAAAUAUUUCACCACCACCAAGAAGGGUGAAAUCUUCGAGCUUAAGUCGGAGCUAAACAAUGAUAAGAAGGAGAAGAAGAAGGAGGCGGUAAAGAAGGUGAUUGCCAGCAUGACUGUGG
((.....(((((((............)))))))(((((...(((...((....(........)....))..)))..))))).))..(((((...(..(((....)))..)...))))).. ( -25.20)
>DroYak_CAF1 27967 120 + 1
CCAAGUACUUCACCACCACCAAGAAGGGCGAGAUCUUCGAGCUGAAGUCGGAGCUGAACAAUGACAAGAAGGAGAAAAAGAAGGAGGCGGUGAAGAAGGUGAUCGCCAGCAUGACCGUGG
(((....(((((((.((.((..(((((......))))).((((........))))...........................)).)).)))))))..(((.(((....).)).))).))) ( -31.50)
>DroAna_CAF1 34913 120 + 1
CCAAGUACUUCACCACCACCAAGAAGGGCGAGAUCUUCGAGCUCAAAUCGGAGCUGAACAAUGACAAGAAGGAGAAGAAGAAGGAGGCCGUGAAGAAGGUGAUAGCCAGCAUGACGGUGG
(((.((.((((((..((.((..(((((......))))).(((((......)))))...........................)).))..))))))..(((....)))......))..))) ( -29.70)
>consensus
CCAAGUACUUCACCACCACCAAGAAGGGCGAGAUCUUCGAGCUCAAGUCGGAGCUGAACAAUGACAAGAAGGAGAAGAAGAAGGAGGCGGUGAAGAAGGUGAUCGCCAGCAUGACCGUGG
(((....(((((((.((.((..(((((......))))).(((((......)))))...........................)).)).)))))))..(((....)))..........))) (-29.46 = -29.77 +   0.31)

alignment

secondary structure

dotplot

Window 2

Location	19,565,346 – 19,565,466
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	94.06
Mean single sequence MFE	-30.41
Consensus MFE	-26.74
Energy contribution	-27.10
Covariance contribution	0.36
Combinations/Pair	1.04
Mean z-score	-1.52
Structure conservation index	0.88
SVM decision value	0.59
SVM RNA-class probability	0.792280
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19565346 120 - 22224390
CCACGGUCAUGCUGGCGAUCACCUUCUUCACCGCCUCCUUCUUCUUCUCCUUCUUGUCGUUAUUCAGCUCCGACUUGAGCUCGAAGAUCUCGCCCUUCUUGGUGGUGGUGAAGUACUUGG
(((.((((........)))).....((((((((((.......(((((...(((..((((...........))))..)))...)))))....(((......)))))))))))))....))) ( -33.60)
>DroSec_CAF1 29234 120 - 1
CCACGGUCAUGCUGGCGAUCACCUUCUUCACCGCCUCCUUCUUCUUCUCCUUCUUGUCGUUAUUCAGCUCCGACUUGAGCUCGAAGAUCUCGCCCUUCUUGGUGGUGGUGAAGUACUUGG
(((.((((........)))).....((((((((((.......(((((...(((..((((...........))))..)))...)))))....(((......)))))))))))))....))) ( -33.60)
>DroEre_CAF1 29079 120 - 1
CCACGGUCAUGCUAGCGAUCACCUUCUUCACCGCCUCCUUCUUUUUCUCCUUCUUGUCAUUGUUAAGCUCCGACUUCAGCUCGAAGAUCUCGCCCUUCUUGGUGGUGGUGAAGUACUUGG
(((.((((........)))).....((((((((((.((...........................((((........)))).((((........))))..)).))))))))))....))) ( -30.10)
>DroWil_CAF1 32714 120 - 1
CCACAGUCAUGCUGGCAAUCACCUUCUUUACCGCCUCCUUCUUCUUCUCCUUCUUAUCAUUGUUUAGCUCCGACUUAAGCUCGAAGAUUUCACCCUUCUUGGUGGUGGUGAAAUAUUUGG
((((((.....)))............(((((((((.((...........................((((........)))).((((........))))..)).))))))))).....))) ( -24.90)
>DroYak_CAF1 27967 120 - 1
CCACGGUCAUGCUGGCGAUCACCUUCUUCACCGCCUCCUUCUUUUUCUCCUUCUUGUCAUUGUUCAGCUCCGACUUCAGCUCGAAGAUCUCGCCCUUCUUGGUGGUGGUGAAGUACUUGG
(((.((((........)))).....((((((((((.((...........................((((........)))).((((........))))..)).))))))))))....))) ( -30.10)
>DroAna_CAF1 34913 120 - 1
CCACCGUCAUGCUGGCUAUCACCUUCUUCACGGCCUCCUUCUUCUUCUCCUUCUUGUCAUUGUUCAGCUCCGAUUUGAGCUCGAAGAUCUCGCCCUUCUUGGUGGUGGUGAAGUACUUGG
...(((...((((.(((((((((........(((.....(((((..........((........))((((......))))..)))))....)))......)))))))))..))))..))) ( -30.14)
>consensus
CCACGGUCAUGCUGGCGAUCACCUUCUUCACCGCCUCCUUCUUCUUCUCCUUCUUGUCAUUGUUCAGCUCCGACUUGAGCUCGAAGAUCUCGCCCUUCUUGGUGGUGGUGAAGUACUUGG
(((..(((.....))).........((((((((((.((...........................((((........)))).((((........))))..)).))))))))))....))) (-26.74 = -27.10 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:08 2006