Locus 5407

Sequence ID 2L_DroMel_CAF1
Location 15,413,433 – 15,413,526
Length 93
Max. P 0.999328
window8581 window8582

overview

Window 1

Location 15,413,433 – 15,413,526
Length 93
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 96.77
Mean single sequence MFE -23.62
Consensus MFE -22.84
Energy contribution -23.44
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.09
Structure conservation index 0.97
SVM decision value 0.10
SVM RNA-class probability 0.585761
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15413433 93 + 22407834
AAUGCGGGCAACCUGAAGAUACCAAAAAAGCCAAAUAAAAGCGACGGAUGCGUGUCGCUUUCGACUGGCUCGGCCACUGAUUUAAUUCGGUAA
...((((....))...............(((((....(((((((((......)))))))))....)))))..)).(((((......))))).. ( -27.40)
>DroSec_CAF1 159242 92 + 1
AAUGCGGGCAACCUGAAGAUACCAAA-AAGCCAAAUAAAAGCGACGGAUGCGUGUCGCUUUCGACUGGCUCUGCCACUGAUUUAAUUCGGUAA
...((((....)).............-.(((((....(((((((((......)))))))))....)))))..)).(((((......))))).. ( -27.40)
>DroSim_CAF1 164233 93 + 1
AAUGCGGGCAACCUGAAGAUACCAAAAAAGCCAAAUAAAAGCGACGGAUGCGUGUCGCUUUCGACUGGCUCUGCCACUGAUUUAAUUCGGUAA
...((((....))...............(((((....(((((((((......)))))))))....)))))..)).(((((......))))).. ( -27.40)
>DroEre_CAF1 165967 93 + 1
AAUGCGGGCAACCUGAAGAUACCAAAAAAGCCAACUAAAAGCGACGGAUGCGUGUCUCUUUCGACUGACUCUGCCACUGAUUUAAUUCGGUUG
.....((....))...............((((.......((.(.((((..((.(((......)))))..)))).).))((......)))))). ( -15.60)
>DroYak_CAF1 166380 93 + 1
AAUGCGGGCAACCUGAAGAUACCAAAAAAGCCAAAUAAAAGCGACGGAUGCGUGUCGCUUUCGACUGACUCUGCCACUGAUUUAAUUCGGUAA
...((((....))...............((.((....(((((((((......)))))))))....)).))..)).(((((......))))).. ( -20.30)
>consensus
AAUGCGGGCAACCUGAAGAUACCAAAAAAGCCAAAUAAAAGCGACGGAUGCGUGUCGCUUUCGACUGGCUCUGCCACUGAUUUAAUUCGGUAA
...((((....))...............(((((....(((((((((......)))))))))....)))))..)).(((((......))))).. (-22.84 = -23.44 +   0.60)

alignment

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secondary structure

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dotplot

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Window 2

Location 15,413,433 – 15,413,526
Length 93
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 96.77
Mean single sequence MFE -28.20
Consensus MFE -26.90
Energy contribution -27.06
Covariance contribution 0.16
Combinations/Pair 1.04
Mean z-score -2.17
Structure conservation index 0.95
SVM decision value 3.51
SVM RNA-class probability 0.999328
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15413433 93 - 22407834
UUACCGAAUUAAAUCAGUGGCCGAGCCAGUCGAAAGCGACACGCAUCCGUCGCUUUUAUUUGGCUUUUUUGGUAUCUUCAGGUUGCCCGCAUU
................(..((((((((((..(((((((((........)))))))))..)))))))...(((.....))))))..)....... ( -30.10)
>DroSec_CAF1 159242 92 - 1
UUACCGAAUUAAAUCAGUGGCAGAGCCAGUCGAAAGCGACACGCAUCCGUCGCUUUUAUUUGGCUU-UUUGGUAUCUUCAGGUUGCCCGCAUU
................(((((((((((((..(((((((((........)))))))))..)))))))-(((((.....))))).)).))))... ( -29.70)
>DroSim_CAF1 164233 93 - 1
UUACCGAAUUAAAUCAGUGGCAGAGCCAGUCGAAAGCGACACGCAUCCGUCGCUUUUAUUUGGCUUUUUUGGUAUCUUCAGGUUGCCCGCAUU
................(((((((((((((..(((((((((........)))))))))..))))))).(((((.....))))).)).))))... ( -29.70)
>DroEre_CAF1 165967 93 - 1
CAACCGAAUUAAAUCAGUGGCAGAGUCAGUCGAAAGAGACACGCAUCCGUCGCUUUUAGUUGGCUUUUUUGGUAUCUUCAGGUUGCCCGCAUU
((((((((....(((((....((((((((..(((((.(((........))).)))))..)))))))).)))))...))).)))))........ ( -24.50)
>DroYak_CAF1 166380 93 - 1
UUACCGAAUUAAAUCAGUGGCAGAGUCAGUCGAAAGCGACACGCAUCCGUCGCUUUUAUUUGGCUUUUUUGGUAUCUUCAGGUUGCCCGCAUU
................(((((((((((((..(((((((((........)))))))))..))))))).(((((.....))))).)).))))... ( -27.00)
>consensus
UUACCGAAUUAAAUCAGUGGCAGAGCCAGUCGAAAGCGACACGCAUCCGUCGCUUUUAUUUGGCUUUUUUGGUAUCUUCAGGUUGCCCGCAUU
................(((((((((((((..(((((((((........)))))))))..))))))).(((((.....))))).)).))))... (-26.90 = -27.06 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:22 2006