Locus 5893

Sequence ID 2L_DroMel_CAF1
Location 16,649,232 – 16,649,323
Length 91
Max. P 0.960442
window9349 window9350

overview

Window 9

Location 16,649,232 – 16,649,323
Length 91
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 94.74
Mean single sequence MFE -23.60
Consensus MFE -20.44
Energy contribution -21.04
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.74
Structure conservation index 0.87
SVM decision value 1.51
SVM RNA-class probability 0.960442
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16649232 91 + 22407834
CUGUAAAAAUAAUUUAUUGAACAAAUGUCGCCGUAUGCGGCAAACAAACCGGAUUGGAUCCGGGUGAAGUGGUUCCAGGAAAA-CUGAAAAC
..................((((.....((((((....)))).......((((((...))))))..))....))))(((.....-)))..... ( -22.60)
>DroSec_CAF1 104029 91 + 1
CUGUAAAAAUAAUUUAUUGACCAAAUGUCGCCGUAUGCGGCAAACAAACCGGAUUGGAUCCGGGUGAAGUGGUUCCUGGAAAA-CUGAAAAC
............((((..(((((....((((((....)))).......((((((...))))))..))..)))))..))))...-........ ( -23.20)
>DroSim_CAF1 106261 91 + 1
CUGUAAAAAUAAUUUAUUGACCAAAUGUCGCCGUAUGCGGCAAACAAACCGGAUUGGAUCCGGGUGAAGUGGUUCCUGGAAAA-CUGAAAAC
............((((..(((((....((((((....)))).......((((((...))))))..))..)))))..))))...-........ ( -23.20)
>DroEre_CAF1 105313 90 + 1
CUGUGGAAAUAAUUUAUUGACCAAAUGUCGCCGUAUGCGGCAAACAAACCGGAUUGGAUCCGGGUGAAGUGGUUCCUGGUAAAUCAGAAA--
(((........((((((((((((....((((((....)))).......((((((...))))))..))..)))))...))))))))))...-- ( -24.00)
>DroYak_CAF1 103232 89 + 1
CUGUAAAAAUAAUUUAUUGACCAAAUGUCGCCGUAUGCGGCAAACAAACCGGAUUGGAUCCGGUUGAAGUGGUUCCUGGAAAA-CUGUAA--
............((((..(((((....((((((....)))).....((((((((...))))))))))..)))))..))))...-......-- ( -25.00)
>consensus
CUGUAAAAAUAAUUUAUUGACCAAAUGUCGCCGUAUGCGGCAAACAAACCGGAUUGGAUCCGGGUGAAGUGGUUCCUGGAAAA_CUGAAAAC
............((((..(((((....((((((....)))).......((((((...))))))..))..)))))..))))............ (-20.44 = -21.04 +   0.60)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,649,232 – 16,649,323
Length 91
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 94.74
Mean single sequence MFE -20.46
Consensus MFE -17.54
Energy contribution -17.74
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.54
Structure conservation index 0.86
SVM decision value 0.84
SVM RNA-class probability 0.864649
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16649232 91 - 22407834
GUUUUCAG-UUUUCCUGGAACCACUUCACCCGGAUCCAAUCCGGUUUGUUUGCCGCAUACGGCGACAUUUGUUCAAUAAAUUAUUUUUACAG
.....(((-.....)))((((........((((((...))))))..((((.((((....))))))))...)))).................. ( -19.70)
>DroSec_CAF1 104029 91 - 1
GUUUUCAG-UUUUCCAGGAACCACUUCACCCGGAUCCAAUCCGGUUUGUUUGCCGCAUACGGCGACAUUUGGUCAAUAAAUUAUUUUUACAG
.......(-((..(((((...........((((((...))))))..((((.((((....)))))))))))))..)))............... ( -19.50)
>DroSim_CAF1 106261 91 - 1
GUUUUCAG-UUUUCCAGGAACCACUUCACCCGGAUCCAAUCCGGUUUGUUUGCCGCAUACGGCGACAUUUGGUCAAUAAAUUAUUUUUACAG
.......(-((..(((((...........((((((...))))))..((((.((((....)))))))))))))..)))............... ( -19.50)
>DroEre_CAF1 105313 90 - 1
--UUUCUGAUUUACCAGGAACCACUUCACCCGGAUCCAAUCCGGUUUGUUUGCCGCAUACGGCGACAUUUGGUCAAUAAAUUAUUUCCACAG
--.(((((......)))))((((......((((((...))))))..((((.((((....))))))))..))))................... ( -22.00)
>DroYak_CAF1 103232 89 - 1
--UUACAG-UUUUCCAGGAACCACUUCAACCGGAUCCAAUCCGGUUUGUUUGCCGCAUACGGCGACAUUUGGUCAAUAAAUUAUUUUUACAG
--.....(-((..(((((.........((((((((...))))))))((((.((((....)))))))))))))..)))............... ( -21.60)
>consensus
GUUUUCAG_UUUUCCAGGAACCACUUCACCCGGAUCCAAUCCGGUUUGUUUGCCGCAUACGGCGACAUUUGGUCAAUAAAUUAUUUUUACAG
.................((.(((......((((((...))))))..((((.((((....))))))))..))))).................. (-17.54 = -17.74 +   0.20)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:38 2006