Locus 51

Sequence ID pao_1
Location 4,536,766 – 4,536,839
Length 73
Max. P 0.997908
window138 window139

overview

Window 8

Location 4,536,766 – 4,536,839
Length 73
Sequences 5
Columns 73
Reading direction forward
Mean pairwise identity 93.29
Mean single sequence MFE -31.06
Consensus MFE -31.62
Energy contribution -30.98
Covariance contribution -0.64
Combinations/Pair 1.13
Mean z-score -1.68
Structure conservation index 1.02
SVM decision value 2.96
SVM RNA-class probability 0.997908
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 4536766 73 + 1
CAAGCGCUCGCGGGCUAGGCGCCUUGCGCGCCAUUACCGCCGGUGGGGACUUUCACCCCGCCCUGAGAACGUU
..(((((((((((....(((((.....)))))....)))).(((((((.......)))))))..)))..)))) ( -34.30)
>pf5_1 1 73 + 1
CAAGCGCUCGCGGGCUAUGCGCAUUGCACGCAAUUACCGCCGGUGGGGAAUUGCACCCCGCCCUGAGAACGUU
..(((((((((((....((((.......))))....)))).(((((((.......)))))))..)))..)))) ( -28.90)
>pfs_1 1 73 + 1
CAAGCGCUCGCGGGCUAUGCACAUUGCGUGCAAUUACCGCCGGUGGGGAAUUGCACCCCGCCCUGAGAACGUU
..(((((((((((....(((((.....)))))....)))).(((((((.......)))))))..)))..)))) ( -31.50)
>pss_1 1 73 + 1
CAAGCGCUCGCGGGCUAGACGCAUUGCGCGUCAUUACCGCCGGUGGGGAAUUGCACCCCGCCCUGAGAACGUU
..(((((((((((....(((((.....)))))....)))).(((((((.......)))))))..)))..)))) ( -32.80)
>pst_1 1 73 + 1
CAAGCGCUCGCGGGCUAGACGCAUUGCGCGCCAUUACCGCCGGUGGGGAGUUGCACCCCGCCCUGAGAACGUU
..(((((((((((....(.(((.....))).)....)))).(((((((.......)))))))..)))..)))) ( -27.80)
>consensus
CAAGCGCUCGCGGGCUAGGCGCAUUGCGCGCCAUUACCGCCGGUGGGGAAUUGCACCCCGCCCUGAGAACGUU
..(((((((((((....(((((.....)))))....)))).(((((((.......)))))))..)))..)))) (-31.62 = -30.98 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 4,536,766 – 4,536,839
Length 73
Sequences 5
Columns 73
Reading direction reverse
Mean pairwise identity 93.29
Mean single sequence MFE -31.68
Consensus MFE -32.98
Energy contribution -31.62
Covariance contribution -1.36
Combinations/Pair 1.25
Mean z-score -1.59
Structure conservation index 1.04
SVM decision value 2.73
SVM RNA-class probability 0.996646
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 4536766 73 - 1
AACGUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAUGGCGCGCAAGGCGCCUAGCCCGCGAGCGCUUG
..(((((....((.(((((....).)))).)).((((....(((((.....)))))....))))))))).... ( -34.60)
>pf5_1 1 73 - 1
AACGUUCUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAAUUGCGUGCAAUGCGCAUAGCCCGCGAGCGCUUG
..(((((....((.((((.......)))).)).((((....(((((.....)))))....))))))))).... ( -30.60)
>pfs_1 1 73 - 1
AACGUUCUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAAUUGCACGCAAUGUGCAUAGCCCGCGAGCGCUUG
..(((((....((.((((.......)))).)).((((....(((((.....)))))....))))))))).... ( -30.40)
>pss_1 1 73 - 1
AACGUUCUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAAUGACGCGCAAUGCGUCUAGCCCGCGAGCGCUUG
..(((((....((.((((.......)))).)).((((....(((((.....)))))....))))))))).... ( -31.70)
>pst_1 1 73 - 1
AACGUUCUCAGGGCGGGGUGCAACUCCCCACCGGCGGUAAUGGCGCGCAAUGCGUCUAGCCCGCGAGCGCUUG
..(((((....((.((((.......)))).)).((((....(((((.....)))))....))))))))).... ( -31.10)
>consensus
AACGUUCUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAAUGGCGCGCAAUGCGCCUAGCCCGCGAGCGCUUG
..(((((....((.((((.......)))).)).((((....(((((.....)))))....))))))))).... (-32.98 = -31.62 +  -1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:48:30 2007