Locus 20

Sequence ID pao.3200
Location 6,038,128 – 6,038,180
Length 52
Max. P 0.970081
window120 window121

overview

Window 0

Location 6,038,128 – 6,038,180
Length 52
Sequences 3
Columns 58
Reading direction forward
Mean pairwise identity 65.48
Mean single sequence MFE -26.40
Consensus MFE -14.71
Energy contribution -16.60
Covariance contribution 1.89
Combinations/Pair 1.08
Mean z-score -1.71
Structure conservation index 0.56
SVM decision value 1.65
SVM RNA-class probability 0.970081
Prediction RNA

Download alignment: ClustalW | MAF

>pao.3200 6038128 52 + 6264404
AAGGCCGGCGGGUCCUAGCGCCCGCCGGCAGAG------CCUUCAUGCCUGGACGGCC
...((((((((((......))))))))))...(------((((((....)))).))). ( -29.30)
>pau.3339 6311047 52 + 6537648
AAGGCCGGCGGGUCCUAGCGCCCGCCGGCAGAG------CCUUCAUGCCUGGACGGCC
...((((((((((......))))))))))...(------((((((....)))).))). ( -29.30)
>pf5.3692 6949441 54 + 7074893
AA----UGAGGUUGCAGGAGCCGGCAGGCCGACGAACCGGCCUUGAGCCUGGGUCGCC
..----...........((.(((((((((((......))))))...))).)).))... ( -20.60)
>consensus
AAGGCCGGCGGGUCCUAGCGCCCGCCGGCAGAG______CCUUCAUGCCUGGACGGCC
...((((((((((......)))))))))).................(((.....))). (-14.71 = -16.60 +   1.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 6,038,128 – 6,038,180
Length 52
Sequences 3
Columns 58
Reading direction reverse
Mean pairwise identity 65.48
Mean single sequence MFE -25.23
Consensus MFE -13.84
Energy contribution -15.73
Covariance contribution 1.89
Combinations/Pair 1.08
Mean z-score -1.33
Structure conservation index 0.55
SVM decision value -0.01
SVM RNA-class probability 0.530016
Prediction RNA

Download alignment: ClustalW | MAF

>pao.3200 6038128 52 - 6264404
GGCCGUCCAGGCAUGAAGG------CUCUGCCGGCGGGCGCUAGGACCCGCCGGCCUU
((((.....((((.((...------.))))))(((((((.....).)))))))))).. ( -28.20)
>pau.3339 6311047 52 - 6537648
GGCCGUCCAGGCAUGAAGG------CUCUGCCGGCGGGCGCUAGGACCCGCCGGCCUU
((((.....((((.((...------.))))))(((((((.....).)))))))))).. ( -28.20)
>pf5.3692 6949441 54 - 7074893
GGCGACCCAGGCUCAAGGCCGGUUCGUCGGCCUGCCGGCUCCUGCAACCUCA----UU
.((((.((.(((...(((((((....)))))))))))).))..)).......----.. ( -19.30)
>consensus
GGCCGUCCAGGCAUGAAGG______CUCUGCCGGCGGGCGCUAGGACCCGCCGGCCUU
.(((.....))).................(((((((((........)))))))))... (-13.84 = -15.73 +   1.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:05:27 2007