Locus 5781

Sequence ID 2R_DroMel_CAF1
Location 18,319,923 – 18,320,015
Length 92
Max. P 0.783400
window9261 window9262

overview

Window 1

Location 18,319,923 – 18,320,015
Length 92
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 84.80
Mean single sequence MFE -39.71
Consensus MFE -31.51
Energy contribution -31.66
Covariance contribution 0.14
Combinations/Pair 1.20
Mean z-score -2.29
Structure conservation index 0.79
SVM decision value 0.56
SVM RNA-class probability 0.783400
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18319923 92 + 20766785
AGGCUGGGGAAGAUGUGGAGGCGCGGUUGCAGCUGCAGCAGUCGCCGCAGCUGAUCGAUGACGCCUUCAUUUUCAUCCGACGCACCGAGAAC
..((...(((.((.(((((((((..(((((((((((.((....)).)))))))..))))..)))))))))..)).)))...))......... ( -39.10)
>DroPse_CAF1 7008 87 + 1
-----GGGGAUGGAGUGGAGGCCAGACUGCAGCUGCAGCAGGCGCCGCAGCUGAUCGACGAUGCCUUCAUCUUCAUCCGUCGCACCGCCAAC
-----..(((((((((((((((.......(((((((.((....)).))))))).........))))))).)))))))).............. ( -38.79)
>DroSec_CAF1 3598 92 + 1
AGGCUGGGGAAGAUGUGGAGGCGCGGUUGCAGCUGCAGCAGUCGCCGCAGCUGAUCGACGACGCCUUCAUCUUCAUCCGACGCACUGAGAAU
(((((((((((((((..((((((((....(((((((.((....)).))))))).....)).))))))))))))).))))..)).))...... ( -42.00)
>DroSim_CAF1 3584 92 + 1
AGGCUGGGGAAGAUGUGGAGGCGCGGUUGCAGCUGCAGCAGUCGCCGCAGCUGAUCGACGACGCCUUCAUCUUCAUCCGACGCACCGAGAAC
..(((((((((((((..((((((((....(((((((.((....)).))))))).....)).))))))))))))).))))..))......... ( -41.90)
>DroAna_CAF1 3369 92 + 1
AGACCGAGGUGGAGGUGGAGGCGAGGCUGCAGCUGCAACAGUCGCCGCAGCUGAUCGACGACGCCUUCAUCUUUAUUCGCCGCACCGAAAAU
.....((((((((((((..(.(((((((((.((.((....)).)).))))))..))).)..))))))))))))..((((......))))... ( -37.70)
>DroPer_CAF1 3322 87 + 1
-----GGGGAUGGAGUGGAGGCCAGACUGCAGCUGCAGCAGGCGCCGCAGCUGAUCGACAAUGCCUUCAUCUUCAUCCGUCGCACCGCCAAC
-----..(((((((((((((((.......(((((((.((....)).))))))).........))))))).)))))))).............. ( -38.79)
>consensus
AGGCUGGGGAAGAUGUGGAGGCGAGGCUGCAGCUGCAGCAGUCGCCGCAGCUGAUCGACGACGCCUUCAUCUUCAUCCGACGCACCGAGAAC
.....((((((((..((((((((......(((((((.((....)).)))))))........))))))))))))).))).............. (-31.51 = -31.66 +   0.14)

alignment

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secondary structure

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dotplot

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Window 2

Location 18,319,923 – 18,320,015
Length 92
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 84.80
Mean single sequence MFE -38.03
Consensus MFE -27.30
Energy contribution -27.17
Covariance contribution -0.14
Combinations/Pair 1.24
Mean z-score -2.13
Structure conservation index 0.72
SVM decision value -0.00
SVM RNA-class probability 0.531325
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18319923 92 - 20766785
GUUCUCGGUGCGUCGGAUGAAAAUGAAGGCGUCAUCGAUCAGCUGCGGCGACUGCUGCAGCUGCAACCGCGCCUCCACAUCUUCCCCAGCCU
......(((..(..(((((....((.((((((.......((((((((((....)))))))))).....)))))).)))))))..)...))). ( -36.00)
>DroPse_CAF1 7008 87 - 1
GUUGGCGGUGCGACGGAUGAAGAUGAAGGCAUCGUCGAUCAGCUGCGGCGCCUGCUGCAGCUGCAGUCUGGCCUCCACUCCAUCCCC-----
((((......))))(((((.((.((.((((...(.(...((((((((((....))))))))))..).)..)))).)))).)))))..----- ( -37.70)
>DroSec_CAF1 3598 92 - 1
AUUCUCAGUGCGUCGGAUGAAGAUGAAGGCGUCGUCGAUCAGCUGCGGCGACUGCUGCAGCUGCAACCGCGCCUCCACAUCUUCCCCAGCCU
......((.((...((..(((((((.((((((.((....((((((((((....))))))))))..)).))))))...))))))).)).)))) ( -40.60)
>DroSim_CAF1 3584 92 - 1
GUUCUCGGUGCGUCGGAUGAAGAUGAAGGCGUCGUCGAUCAGCUGCGGCGACUGCUGCAGCUGCAACCGCGCCUCCACAUCUUCCCCAGCCU
......(((.....((..(((((((.((((((.((....((((((((((....))))))))))..)).))))))...))))))).)).))). ( -41.10)
>DroAna_CAF1 3369 92 - 1
AUUUUCGGUGCGGCGAAUAAAGAUGAAGGCGUCGUCGAUCAGCUGCGGCGACUGUUGCAGCUGCAGCCUCGCCUCCACCUCCACCUCGGUCU
......((((.(((((.....(((((.....))))).....((((((((..(....)..)))))))).)))))..))))............. ( -34.40)
>DroPer_CAF1 3322 87 - 1
GUUGGCGGUGCGACGGAUGAAGAUGAAGGCAUUGUCGAUCAGCUGCGGCGCCUGCUGCAGCUGCAGUCUGGCCUCCACUCCAUCCCC-----
((((......))))(((((.((.((.((((...(.(...((((((((((....))))))))))..).)..)))).)))).)))))..----- ( -38.40)
>consensus
GUUCUCGGUGCGUCGGAUGAAGAUGAAGGCGUCGUCGAUCAGCUGCGGCGACUGCUGCAGCUGCAACCGCGCCUCCACAUCUUCCCCAGCCU
......((.((((.((.((..(((((.....)))))...((((((((((....)))))))))))).))))))..))................ (-27.30 = -27.17 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:16 2006