Locus 39

Sequence ID pao.1329
Location 2,444,784 – 2,444,846
Length 62
Max. P 0.999693
window195 window196

overview

Window 5

Location 2,444,784 – 2,444,846
Length 62
Sequences 5
Columns 62
Reading direction forward
Mean pairwise identity 74.84
Mean single sequence MFE -22.94
Consensus MFE -17.50
Energy contribution -17.50
Covariance contribution 0.00
Combinations/Pair 1.50
Mean z-score -3.65
Structure conservation index 0.76
SVM decision value 3.90
SVM RNA-class probability 0.999693
Prediction RNA

Download alignment: ClustalW | MAF

>pao.1329 2444784 62 + 6264404
UCCGAGUUCCGGAAUUAAGGGCGAUGGUAUCCACAUAUUAUUUAGCGGGCGUGAUAAUUUUU
((((.....)))).......((((((((((....))))))))..))................ (  -8.30)
>pau.2796 5301095 62 + 6537648
UCCGAACUCCAGCAUUAAGGGCGAUGGUGUCCGCGUAUUUUUAAGCGGACGCGAUCACCCUU
................(((((.(((.((((((((..........)))))))).))).))))) ( -27.50)
>pss.443 5244333 62 - 6093698
UCCUAGCUCGAGCAAUAAGGGCGAUUGUGUCCGCGUAUUUUUAUGCGGACGCAAUUACCCUU
.....((....))...(((((..((((((((((((((....))))))))))))))..))))) ( -32.90)
>ppk.2140 1987817 62 - 6181863
UCCGAACUCCAGCUUUAAGGGCGAUGGUGUCCGCGUAUUUUUAAGCGGACGCGAUCACCCUU
................(((((.(((.((((((((..........)))))))).))).))))) ( -27.50)
>pst.2799 1092182 62 - 6397126
UCAAACCCCCAGCAUUAAUGACGAUGGUGUCCACUUUGAAAUACGUGGACACCAUAGCCCUU
.......................(((((((((((..........)))))))))))....... ( -18.50)
>consensus
UCCGAACUCCAGCAUUAAGGGCGAUGGUGUCCGCGUAUUUUUAAGCGGACGCGAUAACCCUU
................(((((.(((.((((((((..........)))))))).))).))))) (-17.50 = -17.50 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 2,444,784 – 2,444,846
Length 62
Sequences 5
Columns 62
Reading direction reverse
Mean pairwise identity 74.84
Mean single sequence MFE -21.40
Consensus MFE -13.68
Energy contribution -14.04
Covariance contribution 0.36
Combinations/Pair 1.33
Mean z-score -3.08
Structure conservation index 0.64
SVM decision value 3.82
SVM RNA-class probability 0.999636
Prediction RNA

Download alignment: ClustalW | MAF

>pao.1329 2444784 62 - 6264404
AAAAAUUAUCACGCCCGCUAAAUAAUAUGUGGAUACCAUCGCCCUUAAUUCCGGAACUCGGA
..............((((..........)))).................((((.....)))) (  -7.50)
>pau.2796 5301095 62 - 6537648
AAGGGUGAUCGCGUCCGCUUAAAAAUACGCGGACACCAUCGCCCUUAAUGCUGGAGUUCGGA
(((((((((.(.((((((..........)))))).).)))))))))....(((.....))). ( -25.50)
>pss.443 5244333 62 + 6093698
AAGGGUAAUUGCGUCCGCAUAAAAAUACGCGGACACAAUCGCCCUUAUUGCUCGAGCUAGGA
(((((..((((.((((((..........)))))).))))..)))))...((....))..... ( -25.20)
>ppk.2140 1987817 62 + 6181863
AAGGGUGAUCGCGUCCGCUUAAAAAUACGCGGACACCAUCGCCCUUAAAGCUGGAGUUCGGA
(((((((((.(.((((((..........)))))).).)))))))))....(((.....))). ( -25.50)
>pst.2799 1092182 62 + 6397126
AAGGGCUAUGGUGUCCACGUAUUUCAAAGUGGACACCAUCGUCAUUAAUGCUGGGGGUUUGA
...(((.(((((((((((..........))))))))))).)))................... ( -23.30)
>consensus
AAGGGUGAUCGCGUCCGCUUAAAAAUACGCGGACACCAUCGCCCUUAAUGCUGGAGCUCGGA
((((((.((.(.((((((..........)))))).).)).))))))................ (-13.68 = -14.04 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:06:46 2007