Locus 3887

Sequence ID 3R_DroMel_CAF1
Location 10,579,099 – 10,579,204
Length 105
Max. P 0.841820
window6230 window6231

overview

Window 0

Location 10,579,099 – 10,579,204
Length 105
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 93.81
Mean single sequence MFE -27.78
Consensus MFE -24.40
Energy contribution -24.12
Covariance contribution -0.28
Combinations/Pair 1.09
Mean z-score -1.24
Structure conservation index 0.88
SVM decision value 0.24
SVM RNA-class probability 0.649202
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10579099 105 + 27905053
CGUACCAUAAAACCGACUCGACUUUGGCGCAUAUUCUGGCCAUGCACUGCACACAUUGCACCGGGUACUUACCCUUGGCCGUUUCAUCUGACAACACAAGGGCAU
.(((((..................((((.((.....))))))((((.((....)).))))...)))))...((((((...(((......)))....))))))... ( -26.70)
>DroSec_CAF1 27907 105 + 1
CGUACCAUAAAACCGACUCCACCUUGGCGCAGAUUCUGGCCAUGCACUGCACACAUUGCACCGGGUACUUACCCUUGGCCGUUUCAUCAGACAACACAAGGGCAU
.(((((..................((((.(((...)))))))((((.((....)).))))...)))))...((((((...(((......)))....))))))... ( -28.20)
>DroSim_CAF1 28308 105 + 1
CGUACCAUAAAACCGACUCCACCUUGGCGCAGAUUCUGGCCAUGCACUGCACACAUUGCACCGGGUACUUACCCUUGGCCGUUUCAUCAGACAACACAAGGGCAU
.(((((..................((((.(((...)))))))((((.((....)).))))...)))))...((((((...(((......)))....))))))... ( -28.20)
>DroEre_CAF1 37085 105 + 1
CAUACCAUAAAAUCGACUCGACUUUGGUGCAGAUUCUGGCCAUGCACUGCACACAUUGCACCGGGUACUUACCCCUGGCCGUUUCAUCGGACAACACGAGGGCAU
................((((..(((((((.((((...(((((((((.((....)).))))..((((....)))).)))))))))))))))).....))))..... ( -27.00)
>DroYak_CAF1 38537 105 + 1
CAUACCAUAAAAUCGACUCGACUUUCUGGCAGAUUCUGGCCAUGCACUGCACACAUUGCAGCGGGUACUUACCCUUGGCCGUUUCAUCGGACAACACGAGGGCAU
................((((....(((((..((..(.(((((....(((((.....))))).((((....)))).))))))..)).))))).....))))..... ( -28.80)
>consensus
CGUACCAUAAAACCGACUCGACUUUGGCGCAGAUUCUGGCCAUGCACUGCACACAUUGCACCGGGUACUUACCCUUGGCCGUUUCAUCAGACAACACAAGGGCAU
.....................(((((...........(((((((((.((....)).))))..((((....)))).)))))(((......)))....))))).... (-24.40 = -24.12 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 1

Location 10,579,099 – 10,579,204
Length 105
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 93.81
Mean single sequence MFE -36.18
Consensus MFE -31.96
Energy contribution -32.56
Covariance contribution 0.60
Combinations/Pair 1.11
Mean z-score -1.39
Structure conservation index 0.88
SVM decision value 0.75
SVM RNA-class probability 0.841820
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10579099 105 - 27905053
AUGCCCUUGUGUUGUCAGAUGAAACGGCCAAGGGUAAGUACCCGGUGCAAUGUGUGCAGUGCAUGGCCAGAAUAUGCGCCAAAGUCGAGUCGGUUUUAUGGUACG
.((((((((.(((((........))))))))))))).(((((.((((((.(.((.((........)))).)...))))))(((..((...))..)))..))))). ( -36.50)
>DroSec_CAF1 27907 105 - 1
AUGCCCUUGUGUUGUCUGAUGAAACGGCCAAGGGUAAGUACCCGGUGCAAUGUGUGCAGUGCAUGGCCAGAAUCUGCGCCAAGGUGGAGUCGGUUUUAUGGUACG
.((((((((.(((((........))))))))))))).(((((..(((((.((....)).)))))((((.((.((..(......)..)).))))))....))))). ( -38.60)
>DroSim_CAF1 28308 105 - 1
AUGCCCUUGUGUUGUCUGAUGAAACGGCCAAGGGUAAGUACCCGGUGCAAUGUGUGCAGUGCAUGGCCAGAAUCUGCGCCAAGGUGGAGUCGGUUUUAUGGUACG
.((((((((.(((((........))))))))))))).(((((..(((((.((....)).)))))((((.((.((..(......)..)).))))))....))))). ( -38.60)
>DroEre_CAF1 37085 105 - 1
AUGCCCUCGUGUUGUCCGAUGAAACGGCCAGGGGUAAGUACCCGGUGCAAUGUGUGCAGUGCAUGGCCAGAAUCUGCACCAAAGUCGAGUCGAUUUUAUGGUAUG
.(((((..(.(((((........))))))..))))).(((((.((((((.(.((.((........)))).)...))))))(((((((...)))))))..))))). ( -33.00)
>DroYak_CAF1 38537 105 - 1
AUGCCCUCGUGUUGUCCGAUGAAACGGCCAAGGGUAAGUACCCGCUGCAAUGUGUGCAGUGCAUGGCCAGAAUCUGCCAGAAAGUCGAGUCGAUUUUAUGGUAUG
(((((.....((((.(((((.....(((((.((((....))))((((((.....))))))...)))))....((.....))..)))).).)))).....))))). ( -34.20)
>consensus
AUGCCCUUGUGUUGUCCGAUGAAACGGCCAAGGGUAAGUACCCGGUGCAAUGUGUGCAGUGCAUGGCCAGAAUCUGCGCCAAAGUCGAGUCGGUUUUAUGGUACG
.((((((((.(((((........))))))))))))).((((((.(((((.((....)).))))).)..((((((.((.((.....)).)).))))))..))))). (-31.96 = -32.56 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:37 2006