Locus 6431

Sequence ID 2L_DroMel_CAF1
Location 18,080,833 – 18,080,993
Length 160
Max. P 0.699190
window10264 window10265

overview

Window 4

Location 18,080,833 – 18,080,953
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 94.44
Mean single sequence MFE -34.67
Consensus MFE -33.36
Energy contribution -33.03
Covariance contribution -0.33
Combinations/Pair 1.10
Mean z-score -1.62
Structure conservation index 0.96
SVM decision value 0.35
SVM RNA-class probability 0.699190
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18080833 120 + 22407834
CCACCCAUAUGACCCACACAGCUGGCCAGUGGCUCUUUGAUGGCUAUUAUGACCAUCUGCUUGACUUCGUGGAGCAGCUGCAUUCGCCCCUGCUCCCGGUUUACGACAACACCUUUGGCU
.......................((((((.((......((((((......).)))))((.(((...(((.(((((((..((....))..))))))))))....)))))...)).)))))) ( -33.80)
>DroSec_CAF1 288193 120 + 1
CCACGCACAUGACCCACACAGCUGGCCAGUGGCUCUUUGAAGGCUACUAUGACCAUCUGCUUGACUUCGUGGAGCAGCUGCAUUCGCCUCUGCUCCCGGUUAACGACAACACCUUUGGCU
....((...(((((((..(((.((((.(((((((.......)))))))..).))).)))..)).....(.(((((((..((....))..)))))))))))))....(((.....))))). ( -35.50)
>DroYak_CAF1 305548 120 + 1
CCACCCACAUGACCCACACAGCUGGCCAAUGGCUCUUUGAUGGCUAUUACGACCAUCUGCUUGACUUCGUGGAGCAGCUGCAUUCGCCUCUGCUCCCGAUUUACAACAACACCUUUGGCU
.......................((((((.((......((((((......).)))))((.(((...(((.(((((((..((....))..))))))))))....)))))...)).)))))) ( -34.70)
>consensus
CCACCCACAUGACCCACACAGCUGGCCAGUGGCUCUUUGAUGGCUAUUAUGACCAUCUGCUUGACUUCGUGGAGCAGCUGCAUUCGCCUCUGCUCCCGGUUUACGACAACACCUUUGGCU
.......................((((((.((......((((((......).)))))((.(((...(((.(((((((..((....))..))))))))))....)))))...)).)))))) (-33.36 = -33.03 +  -0.33)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 5

Location 18,080,873 – 18,080,993
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 94.44
Mean single sequence MFE -39.37
Consensus MFE -38.46
Energy contribution -37.80
Covariance contribution -0.66
Combinations/Pair 1.08
Mean z-score -1.40
Structure conservation index 0.98
SVM decision value 0.06
SVM RNA-class probability 0.565044
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18080873 120 + 22407834
UGGCUAUUAUGACCAUCUGCUUGACUUCGUGGAGCAGCUGCAUUCGCCCCUGCUCCCGGUUUACGACAACACCUUUGGCUGGUUCUACGAGAGGAAUAACUCAAAGACGGCCGAGGGAAA
((((......).)))..((.(((...(((.(((((((..((....))..))))))))))....)))))...((((((((((..(((....(((......)))..)))))))))))))... ( -39.00)
>DroSec_CAF1 288233 120 + 1
AGGCUACUAUGACCAUCUGCUUGACUUCGUGGAGCAGCUGCAUUCGCCUCUGCUCCCGGUUAACGACAACACCUUUGGCUGGUUCUACGAGAGGAAUAACUCCAAGACGGCCGAGGGAAA
.........(((((.((.....))....(.(((((((..((....))..))))))))))))).........((((((((((..(((..(.(((......)))).)))))))))))))... ( -39.60)
>DroYak_CAF1 305588 120 + 1
UGGCUAUUACGACCAUCUGCUUGACUUCGUGGAGCAGCUGCAUUCGCCUCUGCUCCCGAUUUACAACAACACCUUUGGCUGGUUCUAUGAGAGGAAUAACUCCAAGACGGCUGAGGGAAA
((((......).)))..((.(((...(((.(((((((..((....))..))))))))))....)))))...((((..((((..(((.((.(((......))))))))))))..))))... ( -39.50)
>consensus
UGGCUAUUAUGACCAUCUGCUUGACUUCGUGGAGCAGCUGCAUUCGCCUCUGCUCCCGGUUUACGACAACACCUUUGGCUGGUUCUACGAGAGGAAUAACUCCAAGACGGCCGAGGGAAA
.(((......).))...((.(((...(((.(((((((..((....))..))))))))))....)))))...((((((((((..(((....(((......)))..)))))))))))))... (-38.46 = -37.80 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:56 2006