Locus 5793

Sequence ID 2R_DroMel_CAF1
Location 18,348,951 – 18,349,111
Length 160
Max. P 0.951832
window9276 window9277

overview

Window 6

Location 18,348,951 – 18,349,071
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.97
Mean single sequence MFE -50.83
Consensus MFE -48.66
Energy contribution -48.85
Covariance contribution 0.19
Combinations/Pair 1.11
Mean z-score -1.50
Structure conservation index 0.96
SVM decision value 0.21
SVM RNA-class probability 0.634699
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18348951 120 + 20766785
CCUGGGCGCCUUCAGCUACACAGGCACGGAUUGCGGCACUGUGUUGGCCAUGUUCAUAAGUGGCAUGAUUGCCAAGGGAGCAAUGGGCUGGCCGGGCAUAUCCUAUGUGUCUGGAUCCCU
...(((.....(((((.((((((((.((.....)))).))))))...((((((((.....(((((....)))))...)))).)))))))))((((((((((...))))))))))..))). ( -48.60)
>DroSim_CAF1 708 120 + 1
CCUGGGCGCCUUCAGCUACACGGGCACGGAUUGCGGCACUGUGCUGGCCAUGUUCAUUAGUGGCAUGAUUGCCAAGGGAGCGAUGGGCUGGCCGGGCAUAUCCUAUGUGUCUGGAUCCCU
...(((.((.....))....(((((((((((....((.(((.((..(((.(((((.....(((((....)))))...)))))...)))..)))))))..))))...)))))))...))). ( -48.70)
>DroEre_CAF1 534 120 + 1
CCUGGGCGCCUUCAGCUACACGGGCACGGAUUGCGGCACUGUACUGGCCAUGUUCAUAAGUGGCAUGAUUGCCAAGGGAGCGCUGGGCUGGCCGGGCAUAUCCUAUGUGUCUGGAGCCCU
...(((((((..((((......(((.(((..((((....))))))))))..((((.....(((((....)))))...)))))))))))...((((((((((...)))))))))).)))). ( -50.20)
>DroYak_CAF1 864 120 + 1
CCUGGGCGCCUUCAGCUACACGGGCACGGAUUGCGGCACUGUGCUGGCCAUGUUCAUAAGUGGCAUGAUUGCCAAGGGCGCAAUGGGCUGGCCGGGCAUAUCCUAUGUGUCCGGAGCCCU
.....(((((((..(((((((((((.((.....)))).))))).))))............(((((....))))))))))))...(((((..((((((((((...))))))))))))))). ( -55.80)
>consensus
CCUGGGCGCCUUCAGCUACACGGGCACGGAUUGCGGCACUGUGCUGGCCAUGUUCAUAAGUGGCAUGAUUGCCAAGGGAGCAAUGGGCUGGCCGGGCAUAUCCUAUGUGUCUGGAGCCCU
...((((((.....))....(((((((((((....((.(((.((..(((.(((((.....(((((....)))))...)))))...)))..)))))))..))))...)))))))..)))). (-48.66 = -48.85 +   0.19)

alignment

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secondary structure

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dotplot

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Window 7

Location 18,348,991 – 18,349,111
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.14
Mean single sequence MFE -51.27
Consensus MFE -46.42
Energy contribution -46.05
Covariance contribution -0.37
Combinations/Pair 1.07
Mean z-score -2.29
Structure conservation index 0.91
SVM decision value 1.42
SVM RNA-class probability 0.951832
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18348991 120 + 20766785
GUGUUGGCCAUGUUCAUAAGUGGCAUGAUUGCCAAGGGAGCAAUGGGCUGGCCGGGCAUAUCCUAUGUGUCUGGAUCCCUCUGCGCCGCCUGGUGUUUCCUCUGGCUAAUAUUCGCCUCC
((((((((((..........(((((....)))))((((((((..((((.(((((((...((((.........))))...)))).)))))))..)))))))).))))))))))........ ( -47.80)
>DroSim_CAF1 748 120 + 1
GUGCUGGCCAUGUUCAUUAGUGGCAUGAUUGCCAAGGGAGCGAUGGGCUGGCCGGGCAUAUCCUAUGUGUCUGGAUCCCUCUGCGCCGCCUGGUGCUUCCUCUGGCUGAUAUUCGCCUCC
.....((((((((.((....)))))))...((((((((((((..((((.(((((((...((((.........))))...)))).)))))))..)))))))).))))........)))... ( -46.40)
>DroEre_CAF1 574 120 + 1
GUACUGGCCAUGUUCAUAAGUGGCAUGAUUGCCAAGGGAGCGCUGGGCUGGCCGGGCAUAUCCUAUGUGUCUGGAGCCCUCUGCGCCGCCUGGUGCUUCCUCUGGCUGAUAUUCGCCUCC
.....((((((((.((....)))))))...(((((((((((((..(((.((((((((((((...)))))))))..((.....))))))))..))))))))).))))........)))... ( -54.80)
>DroYak_CAF1 904 120 + 1
GUGCUGGCCAUGUUCAUAAGUGGCAUGAUUGCCAAGGGCGCAAUGGGCUGGCCGGGCAUAUCCUAUGUGUCCGGAGCCCUCUGCGCCGCCUGGUGCUUCCUCUGGCUGAUCUUCGCCUCC
(..(((((............(((((....)))))..((((((..(((((..((((((((((...)))))))))))))))..))))))))).))..).......(((........)))... ( -56.10)
>consensus
GUGCUGGCCAUGUUCAUAAGUGGCAUGAUUGCCAAGGGAGCAAUGGGCUGGCCGGGCAUAUCCUAUGUGUCUGGAGCCCUCUGCGCCGCCUGGUGCUUCCUCUGGCUGAUAUUCGCCUCC
.....((((((((.((....)))))))...((((((((((((..((((.((((((((((((...)))))))))((....))...)))))))..)))))))).))))........)))... (-46.42 = -46.05 +  -0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:30 2006