Locus 6040

Sequence ID 2R_DroMel_CAF1
Location 18,998,139 – 18,998,229
Length 90
Max. P 0.784325
window9680 window9681

overview

Window 0

Location 18,998,139 – 18,998,229
Length 90
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 83.19
Mean single sequence MFE -37.75
Consensus MFE -26.04
Energy contribution -26.90
Covariance contribution 0.86
Combinations/Pair 1.18
Mean z-score -1.77
Structure conservation index 0.69
SVM decision value 0.05
SVM RNA-class probability 0.558213
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18998139 90 + 20766785
CUAACUGGCCGCCGACGCAGCGGCAGCUACUCCCAGGCUCAGGAGAAUCCCCAGCUGGGCCAGCAGCCGGCU------GGACAGUUGCCCAUCCAA
.(((((((((((.......))))).....((((........)))).....((((((((........))))))------)).))))))......... ( -34.20)
>DroPse_CAF1 100454 90 + 1
CUUAGUGGCCGCCGGCGCAGCGGCAGCUGCACCCAGGCCCAGA----CCCACAGC--GUCCAGCCGAGCGCCGCCACGGUCCAGAGCCAGGUCCAG
....(((((((((((((((((....)))))...........((----(.......--)))..)))).)))..)))))((.((.......)).)).. ( -36.90)
>DroSec_CAF1 96463 90 + 1
CUAACGGGCCGCCGACGCAGCGGCAGCUACUCUCAGGCCCAGGAGAAUCCCCAGCUGGGCCAGCAGCCGGCU------GGCCAACUGCCCAUCCAA
.....(((((((((......))))((.....))..))))).(((.......(((...(((((((.....)))------))))..)))....))).. ( -36.80)
>DroSim_CAF1 101066 90 + 1
CUAACGGGCCGCCGACGCAGCGGCAGCUACUCCCAGGCCCAGGAGAAUCCCCAGCUGGGCCAGCAGCCGGCU------GGCCAACUGCCCAUCCAA
.....(((((((((......)))).(.......).))))).(((.......(((...(((((((.....)))------))))..)))....))).. ( -36.60)
>DroEre_CAF1 98978 90 + 1
CUAACUGGACGCCGCCGCAGCGGCAGCUACUCCCAGGCCCAGGAGAACCCCCAGCUGGGCCAGCAGCCGGCU------GGCCAGCUGCCCAUCCAA
.....((((.(((((....))))).....((((........))))......(((((((.(((((.....)))------)))))))))....)))). ( -40.30)
>DroYak_CAF1 100427 90 + 1
CUAACUGGCCGCCGCCGUAGCGGCAGCUACUCCCAGGCCCAGGAGAAUCCCCAGCUGGGCCAGCAGCCCGCC------GGCCAGUUGCCCAUCCAA
.((((((((((((((....))))).(((.((....(((((((..(......)..))))))))).))).....------)))))))))......... ( -41.70)
>consensus
CUAACUGGCCGCCGACGCAGCGGCAGCUACUCCCAGGCCCAGGAGAAUCCCCAGCUGGGCCAGCAGCCGGCU______GGCCAGCUGCCCAUCCAA
......(((.((((......)))).))).......(((((((............))))))).((((..((((......))))..))))........ (-26.04 = -26.90 +   0.86)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,998,139 – 18,998,229
Length 90
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 83.19
Mean single sequence MFE -51.58
Consensus MFE -31.11
Energy contribution -32.17
Covariance contribution 1.06
Combinations/Pair 1.21
Mean z-score -3.14
Structure conservation index 0.60
SVM decision value 0.57
SVM RNA-class probability 0.784325
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18998139 90 - 20766785
UUGGAUGGGCAACUGUCC------AGCCGGCUGCUGGCCCAGCUGGGGAUUCUCCUGAGCCUGGGAGUAGCUGCCGCUGCGUCGGCGGCCAGUUAG
..((((((....))))))------(((.((((((((((((((((.(((.....))).)).))))..(((((....))))))))))))))).))).. ( -50.50)
>DroPse_CAF1 100454 90 - 1
CUGGACCUGGCUCUGGACCGUGGCGGCGCUCGGCUGGAC--GCUGUGGG----UCUGGGCCUGGGUGCAGCUGCCGCUGCGCCGGCGGCCACUAAG
..(((((((((((..(.(((.(((...)))))))..)).--)))..)))----))).(((((.((((((((....)))))))).).))))...... ( -46.90)
>DroSec_CAF1 96463 90 - 1
UUGGAUGGGCAGUUGGCC------AGCCGGCUGCUGGCCCAGCUGGGGAUUCUCCUGGGCCUGAGAGUAGCUGCCGCUGCGUCGGCGGCCCGUUAG
...(((((((.(((((((------((((((((((((((((((..(((....))))))))))....))))))))..)))).)))))).))))))).. ( -51.40)
>DroSim_CAF1 101066 90 - 1
UUGGAUGGGCAGUUGGCC------AGCCGGCUGCUGGCCCAGCUGGGGAUUCUCCUGGGCCUGGGAGUAGCUGCCGCUGCGUCGGCGGCCCGUUAG
...(((((((.(((((((------(((.(((.((((.(((((((.(((.....))).)).)))))..)))).))))))).)))))).))))))).. ( -54.40)
>DroEre_CAF1 98978 90 - 1
UUGGAUGGGCAGCUGGCC------AGCCGGCUGCUGGCCCAGCUGGGGGUUCUCCUGGGCCUGGGAGUAGCUGCCGCUGCGGCGGCGUCCAGUUAG
((((((((((((((((..------..))))))))).(((((((.((.(((((((((......))))).)))).)))))).)))..))))))).... ( -52.90)
>DroYak_CAF1 100427 90 - 1
UUGGAUGGGCAACUGGCC------GGCGGGCUGCUGGCCCAGCUGGGGAUUCUCCUGGGCCUGGGAGUAGCUGCCGCUACGGCGGCGGCCAGUUAG
..........((((((((------....(((((((..(((((((.(((.....))).)).))))))))))))(((((....))))))))))))).. ( -53.40)
>consensus
UUGGAUGGGCAGCUGGCC______AGCCGGCUGCUGGCCCAGCUGGGGAUUCUCCUGGGCCUGGGAGUAGCUGCCGCUGCGUCGGCGGCCAGUUAG
.......(((....(((........)))((((((((.(((((((.(((.....))).)).))))).(((((....)))))..)))))))).))).. (-31.11 = -32.17 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:02 2006