Locus 7811

Sequence ID 3L_DroMel_CAF1
Location 20,892,291 – 20,892,451
Length 160
Max. P 0.961699
window12710 window12711

overview

Window 0

Location 20,892,291 – 20,892,411
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.92
Mean single sequence MFE -25.04
Consensus MFE -20.78
Energy contribution -21.30
Covariance contribution 0.52
Combinations/Pair 1.06
Mean z-score -1.93
Structure conservation index 0.83
SVM decision value 1.53
SVM RNA-class probability 0.961699
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20892291 120 + 23771897
AAUAUAAUGAUCUCAUCCUAUAUACCAUAUGAGAAAAAUGAAUACGAUCAGAGAGAACCUUGGUUCGGAACUCAGUUCAAAACCAUCUCUAUGCCCCCAAAAUGGCAAACUAUGUGGGAA
...............(((((((((...........................(((((....(((((..((((...))))..)))))))))).((((........))))...))))))))). ( -27.00)
>DroSec_CAF1 148935 120 + 1
AAUAUAAUGAUCUCAUCCUAUAUACCAUAUGAGAAAAAUGAGUACGACCAGAGAGAACCUUGGUUUGGAACUCAAUUCAAAACCAUCUCCAUGCCCUCAAAAUGGCAAACCAUGUGGGAA
.((((((((....)))..))))).(((((((.(((...(((((.(((((((........)))).)))..))))).))).............((((........))))...)))))))... ( -25.50)
>DroSim_CAF1 145405 120 + 1
AAUAUAAUGAUCUCAUCCUAUAUACCAUAUGAGAAAAAUGAGUACGAUCAGAGAGAACCUUGGUUUGGAACUCAAUUCAAAACCAUCUCCAUGCCCUCAAAAUGGCAAACAAUGUGGGAA
...............((((((((.......((((....(((......)))..........((((((.(((.....))).))))))))))..((((........))))....)))))))). ( -24.30)
>DroEre_CAF1 148810 120 + 1
AAUAUAAUGAUCUCAUCUUAUAUGCCAUAUGAAGAGAAUGAAUACGACCAGAAGGAGCCUUGGUUUGGAACUCAAUUCAAAACCAUCUCUAUGCCCUUAAAGUGGCAAACUAUGUGGGAA
.((((((.(((...))))))))).(((((((.(((((..........((....)).....((((((.(((.....))).))))))))))).(((((.....).))))...)))))))... ( -26.70)
>DroYak_CAF1 149804 120 + 1
AAUAUAAUGAUCUCAUCCUAUAUACCAUAUGAAGAAAAUGAUUACGACCAGAAAGAACCUUGGUUUGGAACUCAAUUCAAAACCAUCUCUAUGCCCUCAAAAUGGCAAACUAUGUGGGAA
...............(((((((((.............................(((....((((((.(((.....))).))))))..))).((((........))))...))))))))). ( -21.70)
>consensus
AAUAUAAUGAUCUCAUCCUAUAUACCAUAUGAGAAAAAUGAAUACGACCAGAGAGAACCUUGGUUUGGAACUCAAUUCAAAACCAUCUCUAUGCCCUCAAAAUGGCAAACUAUGUGGGAA
.((((((((....)))..))))).(((((((.....................((((....((((((.(((.....))).))))))))))..((((........))))...)))))))... (-20.78 = -21.30 +   0.52)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,892,331 – 20,892,451
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.83
Mean single sequence MFE -28.06
Consensus MFE -23.94
Energy contribution -24.22
Covariance contribution 0.28
Combinations/Pair 1.12
Mean z-score -1.32
Structure conservation index 0.85
SVM decision value 0.21
SVM RNA-class probability 0.633416
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20892331 120 + 23771897
AAUACGAUCAGAGAGAACCUUGGUUCGGAACUCAGUUCAAAACCAUCUCUAUGCCCCCAAAAUGGCAAACUAUGUGGGAACAGUCAGCGACUAUAAAAGAGUUGCACUAUCCGCAACCAA
...........(((((....(((((..((((...))))..)))))))))).((((........)))).....((((((...(((..((((((.......))))))))).))))))..... ( -30.70)
>DroSec_CAF1 148975 120 + 1
AGUACGACCAGAGAGAACCUUGGUUUGGAACUCAAUUCAAAACCAUCUCCAUGCCCUCAAAAUGGCAAACCAUGUGGGAACAGUCAGCGACAUUAAAGGAGUUGCACUAUCCGCAGCCAA
.....((.((..((((....((((((.(((.....))).))))))))))..))...))....((((......((((((...(((((((..(......)..)))).))).)))))))))). ( -27.90)
>DroSim_CAF1 145445 120 + 1
AGUACGAUCAGAGAGAACCUUGGUUUGGAACUCAAUUCAAAACCAUCUCCAUGCCCUCAAAAUGGCAAACAAUGUGGGAAAAGUCAGCGACUUUAAAGGAGUUGCACUAUCCGCAGCCAA
.....((.((..((((....((((((.(((.....))).))))))))))..))...))....((((......((((((...(((..(((((((.....)))))))))).)))))))))). ( -29.70)
>DroEre_CAF1 148850 120 + 1
AAUACGACCAGAAGGAGCCUUGGUUUGGAACUCAAUUCAAAACCAUCUCUAUGCCCUUAAAGUGGCAAACUAUGUGGGAACAGCCAGCGACCUUAAAAGAGUUGCAUUAUCCGCAACCCA
.............((((...((((((.(((.....))).)))))).)))).(((((.....).)))).....((((((......).(((((((....)).))))).....)))))..... ( -26.50)
>DroYak_CAF1 149844 120 + 1
AUUACGACCAGAAAGAACCUUGGUUUGGAACUCAAUUCAAAACCAUCUCUAUGCCCUCAAAAUGGCAAACUAUGUGGGAACAGCCAGCGACUUUAAACGAGUUGCAAUAUCCGCAACCGA
...................((((((((((.............((((.....((((........))))......)))).........(((((((.....)))))))....)))).)))))) ( -25.50)
>consensus
AAUACGACCAGAGAGAACCUUGGUUUGGAACUCAAUUCAAAACCAUCUCUAUGCCCUCAAAAUGGCAAACUAUGUGGGAACAGUCAGCGACUUUAAAAGAGUUGCACUAUCCGCAACCAA
...................((((((((((.............((((.....((((........))))......)))).........(((((((.....)))))))....)))).)))))) (-23.94 = -24.22 +   0.28)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:32 2006