Locus 3836

Sequence ID X_DroMel_CAF1
Location 10,180,099 – 10,180,190
Length 91
Max. P 0.983126
window6311 window6312

overview

Window 1

Location 10,180,099 – 10,180,190
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 95.60
Mean single sequence MFE -29.23
Consensus MFE -26.55
Energy contribution -27.11
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -2.20
Structure conservation index 0.91
SVM decision value 1.24
SVM RNA-class probability 0.934484
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10180099 91 + 22224390
AACCAUCUAUAUUCCAGCUCCCUUGGCAGUUUCGGUUUCAAGUGCCAUUGGAGCUGAAGCUCCUCCGGAUUGCUCACUUGAUGGCUUGGCC
..(((((.......(((((((..(((((.((........)).)))))..))))))).((((((...)))..))).....)))))....... ( -31.00)
>DroSec_CAF1 8720 91 + 1
AACCAUCUAUAUCCCAGCUCCCUUGACAGUUUCGGUUUCAAGUGCCAAUGGAGCUGAAGCUCCUCCGGAUUGCUCACUUGAUGGCUUGGCC
..(((((.......(((((((.(((.((.((........)).)).))).))))))).((((((...)))..))).....)))))....... ( -24.70)
>DroSim_CAF1 9884 91 + 1
AACCAUCUAUAUCCCAGCUCCCUUGGCAGUUUCGGUUUCAAGUGCCAUUGGAGCUGAAGCUCCUCCGGAUUGCCCACUUGAUGGCUUGGCC
..(((((.......(((.(((...((.((((((((((((((......))))))))))))))))...)))))).......)))))....... ( -30.84)
>DroYak_CAF1 12817 91 + 1
AAGCAUCUAUAUCAUAGCUCCCUCGGCAGUUUCGGUUUCAAGUGCCAUUGGAGCUGAAGCUCCUCCGGAUUGCUCACUUGAUGGCUUGGCC
..((.....(((((.((((((...((.((((((((((((((......))))))))))))))))...)))..)))....))))).....)). ( -30.40)
>consensus
AACCAUCUAUAUCCCAGCUCCCUUGGCAGUUUCGGUUUCAAGUGCCAUUGGAGCUGAAGCUCCUCCGGAUUGCUCACUUGAUGGCUUGGCC
..(((((.......(((.(((...((.((((((((((((((......))))))))))))))))...)))))).......)))))....... (-26.55 = -27.11 +   0.56)

alignment

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secondary structure

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dotplot

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Window 2

Location 10,180,099 – 10,180,190
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 95.60
Mean single sequence MFE -31.62
Consensus MFE -30.41
Energy contribution -30.35
Covariance contribution -0.06
Combinations/Pair 1.11
Mean z-score -2.45
Structure conservation index 0.96
SVM decision value 1.93
SVM RNA-class probability 0.983126
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10180099 91 - 22224390
GGCCAAGCCAUCAAGUGAGCAAUCCGGAGGAGCUUCAGCUCCAAUGGCACUUGAAACCGAAACUGCCAAGGGAGCUGGAAUAUAGAUGGUU
.....(((((((......((..(((...)))))(((((((((..(((((.((........)).)))))..))))))))).....))))))) ( -34.10)
>DroSec_CAF1 8720 91 - 1
GGCCAAGCCAUCAAGUGAGCAAUCCGGAGGAGCUUCAGCUCCAUUGGCACUUGAAACCGAAACUGUCAAGGGAGCUGGGAUAUAGAUGGUU
.....(((((((....((((..(((...)))))))(((((((.((((((.((........)).)))))).))))))).......))))))) ( -32.20)
>DroSim_CAF1 9884 91 - 1
GGCCAAGCCAUCAAGUGGGCAAUCCGGAGGAGCUUCAGCUCCAAUGGCACUUGAAACCGAAACUGCCAAGGGAGCUGGGAUAUAGAUGGUU
.....(((((((.....(((..(((...))))))((((((((..(((((.((........)).)))))..))))))))......))))))) ( -33.60)
>DroYak_CAF1 12817 91 - 1
GGCCAAGCCAUCAAGUGAGCAAUCCGGAGGAGCUUCAGCUCCAAUGGCACUUGAAACCGAAACUGCCGAGGGAGCUAUGAUAUAGAUGCUU
(((...))).......(((((.((.((((...))))((((((..(((((.((........)).)))))..))))))........))))))) ( -26.60)
>consensus
GGCCAAGCCAUCAAGUGAGCAAUCCGGAGGAGCUUCAGCUCCAAUGGCACUUGAAACCGAAACUGCCAAGGGAGCUGGGAUAUAGAUGGUU
.....(((((((....((((..(((...)))))))(((((((..(((((.((........)).)))))..))))))).......))))))) (-30.41 = -30.35 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:55 2006