Locus 5199

Sequence ID X_DroMel_CAF1
Location 13,587,720 – 13,587,817
Length 97
Max. P 0.969122
window8430 window8431

overview

Window 0

Location 13,587,720 – 13,587,817
Length 97
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 91.61
Mean single sequence MFE -18.13
Consensus MFE -16.50
Energy contribution -16.83
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.80
Structure conservation index 0.91
SVM decision value 1.64
SVM RNA-class probability 0.969122
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13587720 97 + 22224390
GAAGUGGAGAGAGAGAUAAAGAGGAGCGAUGGAAAAGAGCAUAAAAAUAAAGUGACGCUGUCGAAAUUGCGUCGCAAACAUUUCGCAAAAAAUAAAA
((((((...................((..(.....)..))...........(((((((..........)))))))...))))))............. ( -19.30)
>DroSec_CAF1 3459 91 + 1
GAAGUGGAGAGAGAGAUAAAGAGGAGCGAGGGAAAAGAGCAUAAA-----AGUGACGCUUUCGAAAUUGCGUCGCAAAUAUUUCGCAAAAA-AAAAC
...((((((................((...........)).....-----.(((((((..........))))))).....)))))).....-..... ( -17.80)
>DroSim_CAF1 3632 92 + 1
GAAGUUGAGAGAGAGAUAAAGAGGAGCGAGGGAAAAGAGCAUAAA-----AGUGACGCUUUCGAAAUUGCGUCGCAAAUAUUUCGCAAAAAAAAAAC
..........(.((((((.......((...........)).....-----.(((((((..........)))))))...)))))).)........... ( -17.30)
>consensus
GAAGUGGAGAGAGAGAUAAAGAGGAGCGAGGGAAAAGAGCAUAAA_____AGUGACGCUUUCGAAAUUGCGUCGCAAAUAUUUCGCAAAAAAAAAAC
...((((((................((...........))...........(((((((..........))))))).....))))))........... (-16.50 = -16.83 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 13,587,720 – 13,587,817
Length 97
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 91.61
Mean single sequence MFE -10.57
Consensus MFE -9.90
Energy contribution -9.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.42
Structure conservation index 0.94
SVM decision value 0.00
SVM RNA-class probability 0.535705
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13587720 97 - 22224390
UUUUAUUUUUUGCGAAAUGUUUGCGACGCAAUUUCGACAGCGUCACUUUAUUUUUAUGCUCUUUUCCAUCGCUCCUCUUUAUCUCUCUCUCCACUUC
...........((((...(....)(((((..........)))))........................))))......................... ( -11.10)
>DroSec_CAF1 3459 91 - 1
GUUUU-UUUUUGCGAAAUAUUUGCGACGCAAUUUCGAAAGCGUCACU-----UUUAUGCUCUUUUCCCUCGCUCCUCUUUAUCUCUCUCUCCACUUC
.....-.....((((.(((...(.(((((..........))))).).-----..)))...........))))......................... ( -10.30)
>DroSim_CAF1 3632 92 - 1
GUUUUUUUUUUGCGAAAUAUUUGCGACGCAAUUUCGAAAGCGUCACU-----UUUAUGCUCUUUUCCCUCGCUCCUCUUUAUCUCUCUCUCAACUUC
...........((((.(((...(.(((((..........))))).).-----..)))...........))))......................... ( -10.30)
>consensus
GUUUUUUUUUUGCGAAAUAUUUGCGACGCAAUUUCGAAAGCGUCACU_____UUUAUGCUCUUUUCCCUCGCUCCUCUUUAUCUCUCUCUCCACUUC
...........((((.....))))(((((..........)))))..................................................... ( -9.90 =  -9.90 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:08 2006