Locus 3301

Sequence ID	2R_DroMel_CAF1
Location	11,250,786 – 11,250,882
Length	96
Max. P	0.584658

overview

Window 5

Location	11,250,786 – 11,250,882
Length	96
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	78.33
Mean single sequence MFE	-26.98
Consensus MFE	-15.68
Energy contribution	-16.82
Covariance contribution	1.14
Combinations/Pair	1.09
Mean z-score	-1.53
Structure conservation index	0.58
SVM decision value	-0.03
SVM RNA-class probability	0.517712
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11250786 96 + 20766785
GGCUAGAAGCAUUAGCAACAUUGCUGUGCUGCCAGCAACAGCAACUGCAACAACAACAACAGCCACUUCCAAGUCCUGCCAGCGACAGCCGAGCCU
((((.(..((....(((...(((((((((.....)).))))))).)))...........(((..(((....))).)))...))..)))))...... ( -24.40)
>DroSec_CAF1 37490 96 + 1
GGCUAGGAGCAUCAGCAACAUUGCUGUGCUGCCAGCAACAGCAACUGCAACAACAACAACAGCCACUUCCAAGUCCUGCCAGCGACAGCCGAGCCU
((((.((((((.(((((....))))))))).)).(((........)))............)))).............(((.((....)).).)).. ( -26.20)
>DroSim_CAF1 40163 96 + 1
GGCUAGGAGCAUCAGCAACAUUGCUGUGCUGCCAGCAACAGCAACUGCAACAACAACAACAGCCACUUCCAAGUCCUGCCAGCGACAGCCGAGCCU
((((.((((((.(((((....))))))))).)).(((........)))............)))).............(((.((....)).).)).. ( -26.20)
>DroYak_CAF1 38868 96 + 1
GGCUAGGAGCAUCAGCAACAUUGCUGUGCUGCCAGCAACAGCAACAACCACAACAGCAACAGCCACUUCCAAGUCCUGCCAGCGACAGCCGAGCCU
((((.((((((.(((((....))))))))).)).((....))..................)))).............(((.((....)).).)).. ( -25.10)
>DroAna_CAF1 35668 84 + 1
GGCCAAGAGCGUUACCCAUGUUGCUGUGUUGCCAGCAACGCCAACGGCCA------------CCGCUAACAAGUCCUGCCAGCGACAGCCGAGCCU
(((................(((((((......))))))).....((((..------------.((((..((.....))..))))...)))).))). ( -26.10)
>DroPer_CAF1 40176 78 + 1
------GGGCGUUAGCAACAUUGCUGUGCUGGCAGCGU------------CAACGGCGACUGGGACUGCAAAGUCCUGCCAGCGUCAGCCGAGUCU
------.(((..(((((....))))).(((((((((((------------.....))).))((((((....))))))))))))....)))...... ( -33.90)
>consensus
GGCUAGGAGCAUCAGCAACAUUGCUGUGCUGCCAGCAACAGCAACUGCAACAACAACAACAGCCACUUCCAAGUCCUGCCAGCGACAGCCGAGCCU
((((....((....))......(((((((((.(((.....((....))................(((....))).))).))))).))))..)))). (-15.68 = -16.82 +   1.14)

alignment

secondary structure

dotplot

Window 6

Location	11,250,786 – 11,250,882
Length	96
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	78.33
Mean single sequence MFE	-36.07
Consensus MFE	-18.71
Energy contribution	-20.05
Covariance contribution	1.34
Combinations/Pair	1.17
Mean z-score	-1.87
Structure conservation index	0.52
SVM decision value	0.10
SVM RNA-class probability	0.584658
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11250786 96 - 20766785
AGGCUCGGCUGUCGCUGGCAGGACUUGGAAGUGGCUGUUGUUGUUGUUGCAGUUGCUGUUGCUGGCAGCACAGCAAUGUUGCUAAUGCUUCUAGCC
..((.((((....)))))).((.((.(((((((((.((((((((.(((((....((....))..)))))))))))))...)))...)))))))))) ( -35.60)
>DroSec_CAF1 37490 96 - 1
AGGCUCGGCUGUCGCUGGCAGGACUUGGAAGUGGCUGUUGUUGUUGUUGCAGUUGCUGUUGCUGGCAGCACAGCAAUGUUGCUGAUGCUCCUAGCC
.((((.((.....((..((((........((..(((((..........)))))..)).))))..))(((((((((....))))).)))))).)))) ( -36.90)
>DroSim_CAF1 40163 96 - 1
AGGCUCGGCUGUCGCUGGCAGGACUUGGAAGUGGCUGUUGUUGUUGUUGCAGUUGCUGUUGCUGGCAGCACAGCAAUGUUGCUGAUGCUCCUAGCC
.((((.((.....((..((((........((..(((((..........)))))..)).))))..))(((((((((....))))).)))))).)))) ( -36.90)
>DroYak_CAF1 38868 96 - 1
AGGCUCGGCUGUCGCUGGCAGGACUUGGAAGUGGCUGUUGCUGUUGUGGUUGUUGCUGUUGCUGGCAGCACAGCAAUGUUGCUGAUGCUCCUAGCC
.((((.((.....((..((((........((..((..(..(....)..)..))..)).))))..))(((((((((....))))).)))))).)))) ( -35.60)
>DroAna_CAF1 35668 84 - 1
AGGCUCGGCUGUCGCUGGCAGGACUUGUUAGCGG------------UGGCCGUUGGCGUUGCUGGCAACACAGCAACAUGGGUAACGCUCUUGGCC
.((((((((..((((((((((...))))))))))------------..))))..((((((((((....).((......)))))))))))...)))) ( -40.00)
>DroPer_CAF1 40176 78 - 1
AGACUCGGCUGACGCUGGCAGGACUUUGCAGUCCCAGUCGCCGUUG------------ACGCUGCCAGCACAGCAAUGUUGCUAACGCCC------
.(((...((((..((((((((((((....)))))..((((....))------------))..))))))).))))...)))((....))..------ ( -31.40)
>consensus
AGGCUCGGCUGUCGCUGGCAGGACUUGGAAGUGGCUGUUGUUGUUGUUGCAGUUGCUGUUGCUGGCAGCACAGCAAUGUUGCUAAUGCUCCUAGCC
.((((.(((.((((((..(((...)))..))))))......................(((((((......))))))).........)))...)))) (-18.71 = -20.05 +   1.34)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:13 2006