Locus 443

Sequence ID 3L_DroMel_CAF1
Location 1,294,922 – 1,295,122
Length 200
Max. P 0.678653
window646 window647

overview

Window 6

Location 1,294,922 – 1,295,042
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.89
Mean single sequence MFE -45.13
Consensus MFE -41.19
Energy contribution -42.03
Covariance contribution 0.84
Combinations/Pair 1.08
Mean z-score -1.82
Structure conservation index 0.91
SVM decision value 0.30
SVM RNA-class probability 0.678653
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1294922 120 + 23771897
AGAAGUGGAUCUGGAUCUGGGAGUGACAGUGAUGAAGCAACUAAGCGGAAGCGCGCCAGGAAUCGCAUCGAAUCUGGCGGGGAAUCGGAUAGAUCUGGGUCCCGUGCUCGCUCCAAGUCG
.............(((...(((((((((....))..(((.....((....)).(((((((..(((...))).)))))))((((..((((....))))..)))).))))))))))..))). ( -44.10)
>DroSim_CAF1 1981 120 + 1
AGAAGUGGAUCUGGAUCUGGGAGUGACAGUGAUGAAGCAACUAAGCGGAAGCGCGCCAAGAAUCGCAUCGAAUCUGGCGGGGAAUCGGAUAGAUCUGGGUCCCGUGCUCGCUCCAAGUCG
.............(((...(((((((((....))..(((.....((....)).(((((.((.(((...))).)))))))((((..((((....))))..)))).))))))))))..))). ( -43.40)
>DroYak_CAF1 1933 120 + 1
AGAAGUGGCUCUGGAAGUGGAAGCGACAGUGAUGGAGCUACCAAGCGCAAGCGCGUCAAGAAUCGCAUCGAAUCUGGCGGGGAAUCGGAUAGAUCUGGGUCCCGUGCUCGCUCCAAGUCG
......((((.((((..(((.(((..((....))..))).))).(((..(((((((((.((.(((...))).)))))).((((..((((....))))..)))))))))))))))))))). ( -47.90)
>consensus
AGAAGUGGAUCUGGAUCUGGGAGUGACAGUGAUGAAGCAACUAAGCGGAAGCGCGCCAAGAAUCGCAUCGAAUCUGGCGGGGAAUCGGAUAGAUCUGGGUCCCGUGCUCGCUCCAAGUCG
.((..(((.........(((..((..((....))..))..)))((((..(((((((((.((.(((...))).)))))).((((..((((....))))..))))))))))))))))..)). (-41.19 = -42.03 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 1,295,002 – 1,295,122
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.78
Mean single sequence MFE -45.70
Consensus MFE -45.15
Energy contribution -45.27
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -1.47
Structure conservation index 0.99
SVM decision value 0.13
SVM RNA-class probability 0.600240
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1295002 120 + 23771897
GGAAUCGGAUAGAUCUGGGUCCCGUGCUCGCUCCAAGUCGAGUUCCCGUUCAAGAUCUCGAUCCAAGUCCGGAUCUCGAUCGAGGUCUCGCUCCAAGUCGGGAUCCCGUUCGAGAUCGCG
(((...(((((((((((((......((((((.....).))))).))).....))))))..))))...))).((((((((.((.((((((((.....).))))))).)).))))))))... ( -47.10)
>DroSim_CAF1 2061 120 + 1
GGAAUCGGAUAGAUCUGGGUCCCGUGCUCGCUCCAAGUCGAGUUCCCGUUCAAGAUCUCGCUCCAAGUCCGGAUCUCGAUCGAGGUCCCGCUCCAAGUCGGGAUCCCGUUCGAGAUCGCG
(((...(((.(((((((((......((((((.....).))))).))).....))))))...)))...))).((((((((.((.((((((((.....).))))))).)).))))))))... ( -48.70)
>DroYak_CAF1 2013 120 + 1
GGAAUCGGAUAGAUCUGGGUCCCGUGCUCGCUCCAAGUCGAGUUCCCGUUCAAGAUCUCGCUCCAAAUCCGGAUCUCGAUCUAGGUCUCGCUCCAAGUCGGGAUCCCGUUCGAGAUCGCG
(((...(((.(((((((((......((((((.....).))))).))).....))))))...)))...))).((((((((.(..((((((((.....).)))))))..).))))))))... ( -41.30)
>consensus
GGAAUCGGAUAGAUCUGGGUCCCGUGCUCGCUCCAAGUCGAGUUCCCGUUCAAGAUCUCGCUCCAAGUCCGGAUCUCGAUCGAGGUCUCGCUCCAAGUCGGGAUCCCGUUCGAGAUCGCG
(((...(((.(((((((((......((((((.....).))))).))).....))))))...)))...))).((((((((.((.((((((((.....).))))))).)).))))))))... (-45.15 = -45.27 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:57 2006