Locus 101

Sequence ID	pao_1
Location	5,884,361 – 5,884,484
Length	123
Max. P	0.911163

overview

Window 3

Location	5,884,361 – 5,884,480
Length	119
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	83.39
Mean single sequence MFE	-45.87
Consensus MFE	-37.32
Energy contribution	-36.72
Covariance contribution	-0.61
Combinations/Pair	1.23
Mean z-score	-2.29
Structure conservation index	0.81
SVM decision value	0.87
SVM RNA-class probability	0.871049
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 5884361 119 + 1
GAUAACUGCAACAACGGAGGUUGCCAGUUGGA-CCGGUGUGCAUGUCCGCACGACGGAAAGCCUUAAGGUCUACUGCAACCGCCACCUUGAACUUUCGGGUUCAAGGGCUAACCCGACAG
.......((......((.((((((.(((.(((-(((.(((((......))))).)((....))....)))))))))))))).)).(((((((((....)))))))))))........... ( -45.50)
>pst_1 41 120 + 1
GAUACGCACAACCACGGGGGUUGCACGUUGGGGUUGGUGUGCAUGUCCGCUCGACGGAAAGCCUUAAAACCUCCUGCAAUCUCCACCUUGAACUUUCGGGUUCAAGGGCUACACCGACAG
.....((........((((((((((....((((((...(.((...((((.....))))..)))....)))))).)))))))))).(((((((((....)))))))))))........... ( -44.10)
>pau_1 41 119 + 1
GAUAACUGCAACAACGGAGGUUGCCAGUUGGA-CCGGUGUGCAUGUCCGCACGACGGAAAGCCUUAAGGUCUACUGCAACCGCCACCUUGAACUUUCGGGUUCAAGGGCUAACCCGACAG
.......((......((.((((((.(((.(((-(((.(((((......))))).)((....))....)))))))))))))).)).(((((((((....)))))))))))........... ( -45.50)
>pel_1 25 111 + 1
GAUACGCACAACCACGGGGGUUGCACGCUGGGGCCGGUGUGCAUGUCCGCCCGACGGAAAGCCUUAACGCCCCCUGCAAUCUCCACCUUGAACUUUCGGGUUCAAGGGCUA---------
.....((........((((((((((....((((((((.(((......))))))..((....)).....))))).)))))))))).(((((((((....)))))))))))..--------- ( -47.20)
>pfs_1 41 119 + 1
GAUUCGCACUACCCUGGAAGUUGCACGUUGGG-CUGGUGUGCAUGUCCGCUAGACGGAAAGCCUUAAAGCCUACUGCAUCUUCCACCUUGAACUUUCGGGUUCAAGGGCUAAGUCGACAG
...(((.(((....((((((.((((.((.(((-((...(.((...((((.....))))..)))....))))))))))).))))))(((((((((....)))))))))....))))))... ( -45.70)
>ppk_1 25 111 + 1
GAUACGCACAACCACGGGGGUUGCACGCUGGGGCCGGUGUGCAUGUCCGCCCGACGGAAAGCCUUAACGCCCCCUGCAAUCUCCACCUUGAACUUUCGGGUUCAAGGGCUA---------
.....((........((((((((((....((((((((.(((......))))))..((....)).....))))).)))))))))).(((((((((....)))))))))))..--------- ( -47.20)
>consensus
GAUACGCACAACCACGGAGGUUGCACGUUGGG_CCGGUGUGCAUGUCCGCACGACGGAAAGCCUUAAAGCCUACUGCAACCUCCACCUUGAACUUUCGGGUUCAAGGGCUAA_CCGACAG
...............((((((((((....(((.((...(.((...((((.....))))..)))....)))))..)))))))))).(((((((((....)))))))))............. (-37.32 = -36.72 +  -0.61)

alignment

secondary structure

dotplot

Window 4

Location	5,884,365 – 5,884,484
Length	119
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.76
Mean single sequence MFE	-47.50
Consensus MFE	-37.32
Energy contribution	-36.72
Covariance contribution	-0.61
Combinations/Pair	1.23
Mean z-score	-2.41
Structure conservation index	0.79
SVM decision value	1.08
SVM RNA-class probability	0.911163
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 5884365 119 + 1
ACUGCAACAACGGAGGUUGCCAGUUGGA-CCGGUGUGCAUGUCCGCACGACGGAAAGCCUUAAGGUCUACUGCAACCGCCACCUUGAACUUUCGGGUUCAAGGGCUAACCCGACAGCGGC
.((((......((.((((((.(((.(((-(((.(((((......))))).)((....))....)))))))))))))).)).(((((((((....)))))))))............)))). ( -48.90)
>pst_1 45 119 + 1
CGCACAACCACGGGGGUUGCACGUUGGGGUUGGUGUGCAUGUCCGCUCGACGGAAAGCCUUAAAACCUCCUGCAAUCUCCACCUUGAACUUUCGGGUUCAAGGGCUACACCGACAGCGG-
(((........((((((((((....((((((...(.((...((((.....))))..)))....)))))).)))))))))).(((((((((....)))))))))............))).- ( -46.50)
>pau_1 45 119 + 1
ACUGCAACAACGGAGGUUGCCAGUUGGA-CCGGUGUGCAUGUCCGCACGACGGAAAGCCUUAAGGUCUACUGCAACCGCCACCUUGAACUUUCGGGUUCAAGGGCUAACCCGACAGCGGC
.((((......((.((((((.(((.(((-(((.(((((......))))).)((....))....)))))))))))))).)).(((((((((....)))))))))............)))). ( -48.90)
>pel_1 29 107 + 1
CGCACAACCACGGGGGUUGCACGCUGGGGCCGGUGUGCAUGUCCGCCCGACGGAAAGCCUUAACGCCCCCUGCAAUCUCCACCUUGAACUUUCGGGUUCAAGGGCUA-------------
.((........((((((((((....((((((((.(((......))))))..((....)).....))))).)))))))))).(((((((((....)))))))))))..------------- ( -47.20)
>pfs_1 45 119 + 1
CGCACUACCCUGGAAGUUGCACGUUGGG-CUGGUGUGCAUGUCCGCUAGACGGAAAGCCUUAAAGCCUACUGCAUCUUCCACCUUGAACUUUCGGGUUCAAGGGCUAAGUCGACAGCGGC
(((.......((((((.((((.((.(((-((...(.((...((((.....))))..)))....))))))))))).))))))(((((((((....)))))))))............))).. ( -46.30)
>ppk_1 29 107 + 1
CGCACAACCACGGGGGUUGCACGCUGGGGCCGGUGUGCAUGUCCGCCCGACGGAAAGCCUUAACGCCCCCUGCAAUCUCCACCUUGAACUUUCGGGUUCAAGGGCUA-------------
.((........((((((((((....((((((((.(((......))))))..((....)).....))))).)))))))))).(((((((((....)))))))))))..------------- ( -47.20)
>consensus
CGCACAACCACGGAGGUUGCACGUUGGG_CCGGUGUGCAUGUCCGCACGACGGAAAGCCUUAAAGCCUACUGCAACCUCCACCUUGAACUUUCGGGUUCAAGGGCUAA_CCGACAGCGG_
...........((((((((((....(((.((...(.((...((((.....))))..)))....)))))..)))))))))).(((((((((....)))))))))................. (-37.32 = -36.72 +  -0.61)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:53:44 2007