Locus 7833

Sequence ID	3L_DroMel_CAF1
Location	20,979,906 – 20,980,066
Length	160
Max. P	0.878892

overview

Window 7

Location	20,979,906 – 20,980,026
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	90.14
Mean single sequence MFE	-31.38
Consensus MFE	-26.73
Energy contribution	-27.97
Covariance contribution	1.25
Combinations/Pair	1.03
Mean z-score	-1.54
Structure conservation index	0.85
SVM decision value	0.33
SVM RNA-class probability	0.689730
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20979906 120 - 23771897
AGUAAUCAACUUGGAAAGAAGUUCAAAACUAUGAAUGGCUUCUCAAGACAUGAAUAUUUCACCAAGCUGCAACGAGGGACUUGAAGGGAAUGUUGGCGGCAAGUGGGGUAGUCAUUUUCG
.........((((..(((..(((((......)))))..)))..))))..((((.(((..(((...(((((((((.....((....))...)))).)))))..)))..))).))))..... ( -32.10)
>DroSim_CAF1 5023 120 - 1
AGAAAUCAACUUGGAAAGAAGUUCAAAACUAUGAAUGGCUUCUCAAGACAUGAAUAUUUCACCAAGCUGCAGCACGGGGCUUGAAGGGAAUGUUGGCGGCAAGUGGGGGAGUCAUUUUCG
.((((....((((..(((..(((((......)))))..)))..))))..((((...(..(((...(((((...(((...((.....))..)))..)))))..)))..)...)))))))). ( -32.70)
>DroEre_CAF1 686 117 - 1
AAAAAUCAACUUGGAAAGAAGUUCAGAACUAUGAAUGGCUUCUCAAGACACGAAUAUUUCACCAAGCUGCAACGAGGGACUUGAAGGGAAAGUUGGUGGAAAGCGG---AAUCAUUCUCG
.....((..((((..(((..(((((......)))))..)))..))))...((....(((((((((.((.(..((((...))))..)....)))))))))))..)))---).......... ( -25.80)
>DroYak_CAF1 3597 120 - 1
AAAAAUCAACUUGGAAAGAAGUUCAAAACUAUGAAUGGCUUCUCAAGACACGAAUAUUUCACCAAGCUGCAACGAGGGGCCUGAGGGGAAUGUUGGUGAAAAGGGGGGAAGUCAUUCUCG
.......(((((......))))).........((((((((((((....(((.((((((((.(((.(((.(.....).))).)).).)))))))).))).......))))))))))))... ( -34.90)
>consensus
AAAAAUCAACUUGGAAAGAAGUUCAAAACUAUGAAUGGCUUCUCAAGACACGAAUAUUUCACCAAGCUGCAACGAGGGACUUGAAGGGAAUGUUGGCGGAAAGUGGGG_AGUCAUUCUCG
.........((((..(((..(((((......)))))..)))..)))).(((.((((((((..((((((.(.....).))))))...)))))))).)))...................... (-26.73 = -27.97 +   1.25)

alignment

secondary structure

dotplot

Window 8

Location	20,979,946 – 20,980,066
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	95.83
Mean single sequence MFE	-31.29
Consensus MFE	-27.61
Energy contribution	-28.18
Covariance contribution	0.56
Combinations/Pair	1.03
Mean z-score	-2.15
Structure conservation index	0.88
SVM decision value	0.91
SVM RNA-class probability	0.878892
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20979946 120 - 23771897
CCACCCAGUGAUCCCACUUCGUGCCUUUUAUUGUGUGAACAGUAAUCAACUUGGAAAGAAGUUCAAAACUAUGAAUGGCUUCUCAAGACAUGAAUAUUUCACCAAGCUGCAACGAGGGAC
...(((((((....))))((((((......(((.(((((..(((.(((.((((..(((..(((((......)))))..)))..))))...))).)))))))))))...)).))))))).. ( -33.00)
>DroSim_CAF1 5063 120 - 1
CCACCCAGUGAUCCCACUUCGUGCCUUUUAUUGUGUGAACAGAAAUCAACUUGGAAAGAAGUUCAAAACUAUGAAUGGCUUCUCAAGACAUGAAUAUUUCACCAAGCUGCAGCACGGGGC
...(((((((....)))).(((((......(((.(((((......(((.((((..(((..(((((......)))))..)))..))))...)))....))))))))......)))))))). ( -33.50)
>DroEre_CAF1 723 120 - 1
CCACCCAGUGAUCCCACUUCGUGCCUUUUAUUAUGUGAACAAAAAUCAACUUGGAAAGAAGUUCAGAACUAUGAAUGGCUUCUCAAGACACGAAUAUUUCACCAAGCUGCAACGAGGGAC
...(((.(((....)))((((((..........((....))........((((..(((..(((((......)))))..)))..)))).)))))).....................))).. ( -27.70)
>DroYak_CAF1 3637 120 - 1
CCACCCAGUGAUCCCACUUCGUGCCUUUUAUUGUGUGAACAAAAAUCAACUUGGAAAGAAGUUCAAAACUAUGAAUGGCUUCUCAAGACACGAAUAUUUCACCAAGCUGCAACGAGGGGC
...(((((((....))))((((((......(((.(((((..........((((..(((..(((((......)))))..)))..))))..........))))))))...)).))))))).. ( -30.95)
>consensus
CCACCCAGUGAUCCCACUUCGUGCCUUUUAUUGUGUGAACAAAAAUCAACUUGGAAAGAAGUUCAAAACUAUGAAUGGCUUCUCAAGACACGAAUAUUUCACCAAGCUGCAACGAGGGAC
...(((((((....))))((((((......(((.(((((..........((((..(((..(((((......)))))..)))..))))..........))))))))...)).))))))).. (-27.61 = -28.18 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:07 2006