Locus 84

Sequence ID Banth.0
Location 5,050,159 – 5,050,188
Length 29
Max. P 0.999937
window498 window499

overview

Window 8

Location 5,050,159 – 5,050,188
Length 29
Sequences 3
Columns 29
Reading direction forward
Mean pairwise identity 72.41
Mean single sequence MFE -9.30
Consensus MFE -5.58
Energy contribution -5.37
Covariance contribution -0.22
Combinations/Pair 1.50
Mean z-score -2.98
Structure conservation index 0.60
SVM decision value 4.68
SVM RNA-class probability 0.999937
Prediction RNA
WARNING Sequence 1 too short.
WARNING Sequence 2 too short.
WARNING Sequence 3 too short.

Download alignment: ClustalW | MAF

>Banth.0 5050159 29 - 5227293
CCUCUCUUAUUUUUGAGAGGUGCUUUUUA
((((((........))))))......... (  -9.30)
>Bcere.0 5018941 29 - 5224283
CCUCUCUUAUUUUUGAGAGGUGCUUUUUA
((((((........))))))......... (  -9.30)
>Bsubt.0 3996920 29 + 4214630
UCUUCCUUACACAAAGGAAGAGCUUUUUA
((((((((.....))))))))........ (  -9.30)
>consensus
CCUCUCUUAUUUUUGAGAGGUGCUUUUUA
((((((........))))))......... ( -5.58 =  -5.37 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 5,050,159 – 5,050,188
Length 29
Sequences 3
Columns 29
Reading direction reverse
Mean pairwise identity 72.41
Mean single sequence MFE -8.77
Consensus MFE -5.08
Energy contribution -4.87
Covariance contribution -0.22
Combinations/Pair 1.50
Mean z-score -3.14
Structure conservation index 0.58
SVM decision value 4.61
SVM RNA-class probability 0.999929
Prediction RNA
WARNING Sequence 1 too short.
WARNING Sequence 2 too short.
WARNING Sequence 3 too short.

Download alignment: ClustalW | MAF

>Banth.0 5050159 29 - 5227293
UAAAAAGCACCUCUCAAAAAUAAGAGAGG
.........((((((........)))))) (  -8.70)
>Bcere.0 5018941 29 - 5224283
UAAAAAGCACCUCUCAAAAAUAAGAGAGG
.........((((((........)))))) (  -8.70)
>Bsubt.0 3996920 29 + 4214630
UAAAAAGCUCUUCCUUUGUGUAAGGAAGA
........((((((((.....)))))))) (  -8.90)
>consensus
UAAAAAGCACCUCUCAAAAAUAAGAGAGG
.........((((((........)))))) ( -5.08 =  -4.87 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:22:05 2006