Locus 2870

Sequence ID 2L_DroMel_CAF1
Location 8,241,595 – 8,241,715
Length 120
Max. P 0.892670
window4557 window4558

overview

Window 7

Location 8,241,595 – 8,241,715
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.17
Mean single sequence MFE -38.38
Consensus MFE -26.74
Energy contribution -27.90
Covariance contribution 1.16
Combinations/Pair 1.13
Mean z-score -2.47
Structure conservation index 0.70
SVM decision value 0.85
SVM RNA-class probability 0.865132
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8241595 120 + 22407834
AGAGGAAAUGAGAUUAUUGGCCGCAUUUUCCUUGGCCAAAAGUUGGUAGAAAUCGUCGGCAAAGCGACAAGAUACCGACGUGGCCAAAAGAAGCAGACCUGCGUUGCAAUUAUUACCUAU
..(((.(((((........((.((...(((.(((((((...(((((((......((((......))))....))))))).)))))))..)))(((....))))).))..))))).))).. ( -36.60)
>DroSec_CAF1 19711 120 + 1
AGAGGAUAUGAGAUUUUCGGCCACAUUUUCCUUGGCCAAAAGUUGGUAGAAAUCGUCGGCAAAGCGACAAGAUACCGACGUGGCCAAAAGGAGCAGACCUGCGGUGCAAUUGUUACCUAU
.((((((.....)))))).(((......((((((((((...(((((((......((((......))))....))))))).))))))..))))(((....))))))............... ( -38.70)
>DroSim_CAF1 19853 120 + 1
AGAGGAUAUGAGAUUAUUGGCCACAUUUUCCUUGGCCAAAAUUUGGUAGAAAUCGUCGGUAAAGCGACAAGAUACCGACGUGGCCAAAAGCAGCAGACCUGCGGUGCAUUUGUUACCUAU
..(((...........((((((((..((((....((((.....)))).))))..(((((((...(.....).)))))))))))))))..((((((....)))..)))........))).. ( -37.80)
>DroEre_CAF1 20851 120 + 1
AGAGGAAAUGAUAUUCUCGUUUGCAUAUUUCUUGGCCAAAAGUUGGUAGAAAUCGUCGGUAAAGCGACAGGUCACCGACGUGGCCAAAAGAAGCAGACCUGCGGUGCAAAUAUUACUUAU
.(((((.......)))))((((((((..((((((((((...((((((.((..(.((((......)))))..)))))))).))))))..))))(((....))).))))))))......... ( -42.50)
>DroYak_CAF1 23212 120 + 1
CGAGGAAAUGAGAUUCUUGUUGGCAUUCUUCUUGGCCAAAAGCUGGUAGAAGUCGUCGGUGAAGCGGCAAGACACCGACGUGGCCAAAAGGAGCAGACCUGUGGUGCAAAUAUUGAGUAU
............((((.((((.((((((((.(((((((...(((......)))((((((((...(.....).))))))))))))))).))))(((....))).)))).))))..)))).. ( -36.30)
>consensus
AGAGGAAAUGAGAUUAUUGGCCGCAUUUUCCUUGGCCAAAAGUUGGUAGAAAUCGUCGGUAAAGCGACAAGAUACCGACGUGGCCAAAAGAAGCAGACCUGCGGUGCAAUUAUUACCUAU
.(((((.......)))))....((((.....(((((((...(((((((......((((......))))....))))))).))))))).....(((....))).))))............. (-26.74 = -27.90 +   1.16)

alignment

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secondary structure

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dotplot

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Window 8

Location 8,241,595 – 8,241,715
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.17
Mean single sequence MFE -32.15
Consensus MFE -26.20
Energy contribution -25.40
Covariance contribution -0.80
Combinations/Pair 1.28
Mean z-score -1.89
Structure conservation index 0.81
SVM decision value 0.97
SVM RNA-class probability 0.892670
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8241595 120 - 22407834
AUAGGUAAUAAUUGCAACGCAGGUCUGCUUCUUUUGGCCACGUCGGUAUCUUGUCGCUUUGCCGACGAUUUCUACCAACUUUUGGCCAAGGAAAAUGCGGCCAAUAAUCUCAUUUCCUCU
..(((.(((...(((...)))((.((((((((((.(((((.((.((((..((((((......))))))....)))).))...)))))))))))...)))))).........))).))).. ( -32.70)
>DroSec_CAF1 19711 120 - 1
AUAGGUAACAAUUGCACCGCAGGUCUGCUCCUUUUGGCCACGUCGGUAUCUUGUCGCUUUGCCGACGAUUUCUACCAACUUUUGGCCAAGGAAAAUGUGGCCGAAAAUCUCAUAUCCUCU
...(((.........)))(((....)))...(((((((((((((((((...........)))))))..(((((.(((.....)))...)))))...)))))))))).............. ( -33.60)
>DroSim_CAF1 19853 120 - 1
AUAGGUAACAAAUGCACCGCAGGUCUGCUGCUUUUGGCCACGUCGGUAUCUUGUCGCUUUACCGACGAUUUCUACCAAAUUUUGGCCAAGGAAAAUGUGGCCAAUAAUCUCAUAUCCUCU
...(((.........)))((((.....))))..(((((((((((((((...........)))))))..(((((.(((.....)))...)))))...))))))))................ ( -34.30)
>DroEre_CAF1 20851 120 - 1
AUAAGUAAUAUUUGCACCGCAGGUCUGCUUCUUUUGGCCACGUCGGUGACCUGUCGCUUUACCGACGAUUUCUACCAACUUUUGGCCAAGAAAUAUGCAAACGAGAAUAUCAUUUCCUCU
..........((((((..(((....)))...((((((((((((((((((.........)))))))))...............)))))))))....)))))).(((((......)).))). ( -31.76)
>DroYak_CAF1 23212 120 - 1
AUACUCAAUAUUUGCACCACAGGUCUGCUCCUUUUGGCCACGUCGGUGUCUUGCCGCUUCACCGACGACUUCUACCAGCUUUUGGCCAAGAAGAAUGCCAACAAGAAUCUCAUUUCCUCG
.....................(((....((.(((((((((((((((((...........)))))))).((......))....))))))))).))..)))..................... ( -28.40)
>consensus
AUAGGUAAUAAUUGCACCGCAGGUCUGCUCCUUUUGGCCACGUCGGUAUCUUGUCGCUUUACCGACGAUUUCUACCAACUUUUGGCCAAGGAAAAUGCGGCCAAGAAUCUCAUUUCCUCU
...........(((((..(((....)))...(((((((((((((((((...........))))))))...............)))))))))....))))).................... (-26.20 = -25.40 +  -0.80)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:17 2006