Locus 442

Sequence ID 3L_DroMel_CAF1
Location 1,294,162 – 1,294,402
Length 240
Max. P 0.962877
window644 window645

overview

Window 4

Location 1,294,162 – 1,294,282
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.00
Mean single sequence MFE -46.77
Consensus MFE -46.38
Energy contribution -46.17
Covariance contribution -0.21
Combinations/Pair 1.11
Mean z-score -2.20
Structure conservation index 0.99
SVM decision value 1.55
SVM RNA-class probability 0.962877
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1294162 120 + 23771897
CUUCCAAUAUCUGUCCGUGCACGGGGAUAAGAAUCGCUUCAACAUUGAGGUGGCUGGCAUUGAGGCAAGCACCUGCCAAGAUCUUCUCUCUCAGGCCCAGUACCAUGUGGGCCGUGCACG
...............((((((((((((.((((.((((((((....)))))))).(((((....((......)))))))...)))).)))))..((((((........))))))))))))) ( -45.50)
>DroSim_CAF1 1221 120 + 1
CUUCCAAUAUCUGUCUGUGCACGGGGAUAAGAAUCGCUUCAACAUUGAGGUGGCUGGCAUUGAGGCAAGCACCUGCCAGGAUCUUCUCUCUCAGGCCCAGUACCAUGUGGGCCGUGCACG
................(((((((((((.((((.((((((((....))))))))((((((....((......))))))))..)))).)))))..((((((........)))))))))))). ( -47.70)
>DroYak_CAF1 1179 120 + 1
CUUCCAAUACCUGUCCGUGCACGGGGAUAAGAAUCGCUUCAACAUCGAGGUGGCUGGUAUUGAGGCAAACACCUGCCAGGAUCUGCUCUCCCAGGCCCAGUACCAUGUGGGCCGUGCGCG
...............((((((((((((..(((.(((((((......)))))))(((((....(((......))))))))..)))..)).))).((((((........))))))))))))) ( -47.10)
>consensus
CUUCCAAUAUCUGUCCGUGCACGGGGAUAAGAAUCGCUUCAACAUUGAGGUGGCUGGCAUUGAGGCAAGCACCUGCCAGGAUCUUCUCUCUCAGGCCCAGUACCAUGUGGGCCGUGCACG
...............((((((((((((.((((.(((((((......)))))))(((((....(((......))))))))..)))).)))))..((((((........))))))))))))) (-46.38 = -46.17 +  -0.21) 

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 5

Location 1,294,282 – 1,294,402
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.56
Mean single sequence MFE -43.10
Consensus MFE -40.99
Energy contribution -40.77
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.58
Structure conservation index 0.95
SVM decision value 0.13
SVM RNA-class probability 0.597056
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1294282 120 + 23771897
UCGCAUUGACGAGGAGGAGCGCUCGUUGCGCCGGAAGCAGGAAGAGGAGCGCGAGGCCUUCAAAAUUAAGGUGGCGGAGCAGCGCAAGCGGCGCGAGGAGGAGGCAAAGACCUCCAGGGA
((((........(((((.((((((.((...((.......))..)).))))))....))))).................((.((....)).))))))...(((((......)))))..... ( -46.30)
>DroSim_CAF1 1341 120 + 1
UCGCAUUGACGAGGAGGAGCGCUCGUUGCGCCGGAAACAGGAAGAGGAGCGCGAGGCCUUUAAAAUUAAGGUGGCGGAGCAGCGCAAGCGGCGGGAGGAGGAGGCAAAGACUUCCAGGGA
((((.((((...(((((.((((((.((...(((....).))..)).))))))....)))))....))))....)))).((.((....)).)).......(((((......)))))..... ( -41.80)
>DroYak_CAF1 1299 120 + 1
UCGCAUUGACGAGGAAGAGCGCUCGUUGCGCCGAAAGCAGGAGGAGGAGCGCGAGGCCUUUAAAAUUAAGGUGGCGGAGCAGCGCAAGCGGCGGGAGGAGGAGGCCAAGACCUCCAGGGA
((((..............((((((.((...((.......))..)).))))))...(((((.......))))).)))).((.((....)).)).......(((((......)))))..... ( -41.20)
>consensus
UCGCAUUGACGAGGAGGAGCGCUCGUUGCGCCGGAAGCAGGAAGAGGAGCGCGAGGCCUUUAAAAUUAAGGUGGCGGAGCAGCGCAAGCGGCGGGAGGAGGAGGCAAAGACCUCCAGGGA
((((..............((((((.((...((.......))..)).))))))...(((((.......))))).)))).((.((....)).)).......(((((......)))))..... (-40.99 = -40.77 +  -0.22) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:55 2006