Locus 4291

Sequence ID	2R_DroMel_CAF1
Location	14,102,394 – 14,102,488
Length	94
Max. P	0.982037

overview

Window 6

Location	14,102,394 – 14,102,488
Length	94
Sequences	6
Columns	94
Reading direction	forward
Mean pairwise identity	75.55
Mean single sequence MFE	-24.73
Consensus MFE	-8.84
Energy contribution	-8.85
Covariance contribution	0.00
Combinations/Pair	1.20
Mean z-score	-2.30
Structure conservation index	0.36
SVM decision value	0.39
SVM RNA-class probability	0.717805
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14102394 94 + 20766785
CCACUAAAGCCGCCAAUCUCGUCGCCACAGCCAAAUCCACACCAAAUUGGGCAUCGAGAGCGACAGCAGAUCCACGGGCACAAAGAUCAGUGGA
(((((...(((((...(((((..(((.(((................))))))..))))))))...)).((((...(....)...))))))))). ( -24.79)
>DroPse_CAF1 12701 77 + 1
CCACAAAUGCCGUCGAGAUCGUCGCCAAAGCC-----------AAAUUGGGCAUCAAGAGCGACGACAUCGACA------UCGACAUCGAGAGA
...........(((((..((((((((...(((-----------......))).....).)))))))..))))).------(((....))).... ( -26.10)
>DroSec_CAF1 11422 94 + 1
CCACUAAAGCCGCCAAUCUCGUCGCCACAACCAAAUCCACACCAAAUUGGGCAUCGAGAGCGACAGCAGAUCCACGGGCACAAAGAUCAGUGGA
(((((...(((((...(((((..(((.(((................))))))..))))))))...)).((((...(....)...))))))))). ( -25.09)
>DroSim_CAF1 24694 94 + 1
CCACUAAAGCCGCCAAUCUCGUCGCCACAACCAAAUCCACACCAAAUUGGGCAUCGAGAGCGACAGCAGAUCCACGGACACAAAGAUCAGUGGA
(((((...(((((...(((((..(((.(((................))))))..))))))))...)).((((...(....)...))))))))). ( -25.09)
>DroEre_CAF1 6614 94 + 1
CCACUAAAGCCGCCGUUCUCGUCGCCACAGCCAAAUCCAAACAAAAUUGGGCAUCAAGUGCGACAGCAGAUCCACGGGCACAAAGACCAGCGGA
.........((((.(.(((.(((((.((.......(((((......)))))......))))))).((.(.....)..))....))).).)))). ( -20.72)
>DroPer_CAF1 12621 83 + 1
CCACAAAUGCCGUCGAGAUCGUCGCCAAAGCC-----------AAAUUGGGCAUCAAGAGCGACGACAUCGACAUCGACAUCGACAUCGAGAGA
...........(((((..((((((((...(((-----------......))).....).)))))))..))))).(((....)))..((....)) ( -26.60)
>consensus
CCACUAAAGCCGCCAAUCUCGUCGCCACAGCCAAAUCCACACCAAAUUGGGCAUCAAGAGCGACAGCAGAUCCACGGGCACAAAGAUCAGUGGA
.........(((....(((.((((((...(((.................))).....).)))))...)))....)))................. ( -8.84 =  -8.85 +   0.00)

alignment

secondary structure

dotplot

Window 7

Location	14,102,394 – 14,102,488
Length	94
Sequences	6
Columns	94
Reading direction	reverse
Mean pairwise identity	75.55
Mean single sequence MFE	-33.52
Consensus MFE	-19.90
Energy contribution	-19.07
Covariance contribution	-0.83
Combinations/Pair	1.41
Mean z-score	-2.32
Structure conservation index	0.59
SVM decision value	1.90
SVM RNA-class probability	0.982037
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14102394 94 - 20766785
UCCACUGAUCUUUGUGCCCGUGGAUCUGCUGUCGCUCUCGAUGCCCAAUUUGGUGUGGAUUUGGCUGUGGCGACGAGAUUGGCGGCUUUAGUGG
.((((((((((.((....)).))))).(((((((.(((((.((((((.((..((....))..)).)).)))).))))).)))))))...))))) ( -34.00)
>DroPse_CAF1 12701 77 - 1
UCUCUCGAUGUCGA------UGUCGAUGUCGUCGCUCUUGAUGCCCAAUUU-----------GGCUUUGGCGACGAUCUCGACGGCAUUUGUGG
......((((((..------.(((((.(((((((((...((.(((......-----------))))).))))))))).)))))))))))..... ( -29.90)
>DroSec_CAF1 11422 94 - 1
UCCACUGAUCUUUGUGCCCGUGGAUCUGCUGUCGCUCUCGAUGCCCAAUUUGGUGUGGAUUUGGUUGUGGCGACGAGAUUGGCGGCUUUAGUGG
.((((((((((.((....)).))))).(((((((.(((((.(((((((((..((....))..))))).)))).))))).)))))))...))))) ( -38.00)
>DroSim_CAF1 24694 94 - 1
UCCACUGAUCUUUGUGUCCGUGGAUCUGCUGUCGCUCUCGAUGCCCAAUUUGGUGUGGAUUUGGUUGUGGCGACGAGAUUGGCGGCUUUAGUGG
.((((((((((.((....)).))))).(((((((.(((((.(((((((((..((....))..))))).)))).))))).)))))))...))))) ( -38.00)
>DroEre_CAF1 6614 94 - 1
UCCGCUGGUCUUUGUGCCCGUGGAUCUGCUGUCGCACUUGAUGCCCAAUUUUGUUUGGAUUUGGCUGUGGCGACGAGAACGGCGGCUUUAGUGG
(((((.(((......))).)))))...(((((((..((((.((((((.((..((....))..)).)).)))).))))..)))))))........ ( -30.40)
>DroPer_CAF1 12621 83 - 1
UCUCUCGAUGUCGAUGUCGAUGUCGAUGUCGUCGCUCUUGAUGCCCAAUUU-----------GGCUUUGGCGACGAUCUCGACGGCAUUUGUGG
....(((((......)))))((((((.(((((((((...((.(((......-----------))))).))))))))).)))))).......... ( -30.80)
>consensus
UCCACUGAUCUUUGUGCCCGUGGAUCUGCUGUCGCUCUCGAUGCCCAAUUUGGUGUGGAUUUGGCUGUGGCGACGAGAUCGGCGGCUUUAGUGG
.(((((((...................(((((((..((((.((((.......................)))).))))..))))))).))))))) (-19.90 = -19.07 +  -0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:19 2006