Locus 2774

Sequence ID 2L_DroMel_CAF1
Location 7,851,532 – 7,851,665
Length 133
Max. P 0.993683
window4408 window4409 window4410

overview

Window 8

Location 7,851,532 – 7,851,625
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 80.11
Mean single sequence MFE -48.02
Consensus MFE -34.22
Energy contribution -36.35
Covariance contribution 2.13
Combinations/Pair 1.12
Mean z-score -2.63
Structure conservation index 0.71
SVM decision value 2.42
SVM RNA-class probability 0.993683
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7851532 93 - 22407834
GAGAACUGGGCGGUGGUAGUGGGAGUGGCAGUGCCAGUGGCAGCGGUGUGGCGUGUUCCCUGGGAGCAGCACCCUGCGCCAUCGCCUGGCUGU
.....(..(((((((((......(.((((...)))).).((((.(((((....((((((...))))))))))))))))))))))))..).... ( -44.50)
>DroSec_CAF1 23683 93 - 1
GGGAGCUGGGCGGUGUCAGUGGGAGUGGCAGUGCCAGUGGCAGCGUGGGGGGGUGCUCCUUGGGAGCAGCACCCUGCGCCAUCGCCUGGCUGU
...(((..((((((((((.(((.(.......).))).)))).(((..(((.(.((((((...)))))).).)))..))).))))))..))).. ( -53.10)
>DroSim_CAF1 25614 93 - 1
GGGAGCUGGGCGGUGGCAGUGGGAGUGGCAGUGCCAGUGGCAGCGUGGGGGCGUGUUCCCUGGGAGCAGCACCCUGCGCCAUCGCCUGGCUGU
...(((..(((((((((..((..(.((((...)))).)..))..(..(((((.((((((...)))))))).)))..))))))))))..))).. ( -52.90)
>DroAna_CAF1 25705 81 - 1
GCGAGGUGGGCGCCAGCAGUGGGAGUGGC------------CAUGGGGGUAUGUGCUCCCUGGGAGCGGCCCCCUGCGCCAUAUCCUGGCUGU
(((.......)))((((...(((.(((((------------((.((((((...((((((...)))))))))))))).))))).)))..)))). ( -41.60)
>consensus
GGGAGCUGGGCGGUGGCAGUGGGAGUGGCAGUGCCAGUGGCAGCGGGGGGGCGUGCUCCCUGGGAGCAGCACCCUGCGCCAUCGCCUGGCUGU
...((((((((((((((.(..((.(((((..((((...)))))).........((((((...)))))).)))))..))))))))))))))).. (-34.22 = -36.35 +   2.13)

alignment

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secondary structure

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dotplot

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Window 9

Location 7,851,572 – 7,851,665
Length 93
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 80.47
Mean single sequence MFE -31.30
Consensus MFE -21.86
Energy contribution -23.05
Covariance contribution 1.19
Combinations/Pair 1.18
Mean z-score -2.15
Structure conservation index 0.70
SVM decision value 1.29
SVM RNA-class probability 0.938030
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7851572 93 + 22407834
CGCCACACCGCUGCCACUGGCACUGCCACUCCCACUACCACCGCCCAGUUCUCCCAACACCGUUUGGGCCUGGCCGGUGGCGGGAUAUCCCAU
.((((............))))................((((((.((((....(((((......))))).)))).)))))).(((....))).. ( -31.80)
>DroSec_CAF1 23723 93 + 1
CCCCCCCACGCUGCCACUGGCACUGCCACUCCCACUGACACCGCCCAGCUCCCCCAACACCGUUUGGGUCUGGCCGGUGGCGGGAUAUCCCAU
............(((((((((.............(((........)))....(((((......)))))....)))))))))(((....))).. ( -31.40)
>DroSim_CAF1 25654 93 + 1
CGCCCCCACGCUGCCACUGGCACUGCCACUCCCACUGCCACCGCCCAGCUCCCCCAACACCGUUUGGGUCUGGCCGGUGGCGGGAUAUCCCAU
....(((..((((((...))))..))..........(((((((.((((....(((((......))))).)))).))))))))))......... ( -36.30)
>DroAna_CAF1 25745 81 + 1
CAUACCCCCAUG------------GCCACUCCCACUGCUGGCGCCCACCUCGCCGAGCACCGUUUGGGACUGCCCGGUGGCAGGAUAUCCCAU
....((.(((((------------(.((.(((((.((((((((.......)))).)))).....))))).)).)).))))..))......... ( -25.70)
>consensus
CGCCCCCACGCUGCCACUGGCACUGCCACUCCCACUGCCACCGCCCAGCUCCCCCAACACCGUUUGGGUCUGGCCGGUGGCGGGAUAUCCCAU
...........((((...))))............(((((((((.((((....(((((......))))).)))).))))))))).......... (-21.86 = -23.05 +   1.19)

alignment

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secondary structure

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dotplot

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Window 0

Location 7,851,572 – 7,851,665
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 80.47
Mean single sequence MFE -41.25
Consensus MFE -25.55
Energy contribution -27.68
Covariance contribution 2.13
Combinations/Pair 1.12
Mean z-score -2.01
Structure conservation index 0.62
SVM decision value 0.56
SVM RNA-class probability 0.780173
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7851572 93 - 22407834
AUGGGAUAUCCCGCCACCGGCCAGGCCCAAACGGUGUUGGGAGAACUGGGCGGUGGUAGUGGGAGUGGCAGUGCCAGUGGCAGCGGUGUGGCG
........(((((((((((.((((.(((((......)))))....)))).)))))))...))))((.(((.(((........))).))).)). ( -44.70)
>DroSec_CAF1 23723 93 - 1
AUGGGAUAUCCCGCCACCGGCCAGACCCAAACGGUGUUGGGGGAGCUGGGCGGUGUCAGUGGGAGUGGCAGUGCCAGUGGCAGCGUGGGGGGG
.........(((.((.((((((...(((((......))))).).)))))(((.(((((.(((.(.......).))).))))).))))).))). ( -41.40)
>DroSim_CAF1 25654 93 - 1
AUGGGAUAUCCCGCCACCGGCCAGACCCAAACGGUGUUGGGGGAGCUGGGCGGUGGCAGUGGGAGUGGCAGUGCCAGUGGCAGCGUGGGGGCG
..(((....)))(((((((.((((.(((((......)))))....)))).)))))))..((..(.((((...)))).)..))((......)). ( -43.00)
>DroAna_CAF1 25745 81 - 1
AUGGGAUAUCCUGCCACCGGGCAGUCCCAAACGGUGCUCGGCGAGGUGGGCGCCAGCAGUGGGAGUGGC------------CAUGGGGGUAUG
.....((((((..(((..((.((.(((((...((((((((......)))))))).....))))).)).)------------).))))))))). ( -35.90)
>consensus
AUGGGAUAUCCCGCCACCGGCCAGACCCAAACGGUGUUGGGGGAGCUGGGCGGUGGCAGUGGGAGUGGCAGUGCCAGUGGCAGCGGGGGGGCG
........(((((((((((.((((.(((((......)))))....)))).)))))))...))))...((..((((...))))))......... (-25.55 = -27.68 +   2.13)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:54 2006