Locus 202

Sequence ID pao.2810
Location 5,322,450 – 5,322,509
Length 59
Max. P 0.967100
window794 window795

overview

Window 4

Location 5,322,450 – 5,322,509
Length 59
Sequences 3
Columns 59
Reading direction forward
Mean pairwise identity 80.79
Mean single sequence MFE -31.00
Consensus MFE -31.14
Energy contribution -30.03
Covariance contribution -1.11
Combinations/Pair 1.18
Mean z-score -5.95
Structure conservation index 1.00
SVM decision value 1.16
SVM RNA-class probability 0.924208
Prediction RNA

Download alignment: ClustalW | MAF

>pao.2810 5322450 59 + 6264404
AUCCAGCGCCCAUGAAAAAGCCCCGCCGGGCAAUCCCGGCGGGGCUUCUUUCUACCUGU
...(((.(.....(((((((((((((((((....))))))))))))).))))..)))). ( -32.20)
>pau.2948 5594379 59 + 6537648
AUCCAGCGCCCAUGAAAAAGCCCCGCCGGGCAAUCCCGGCGGGGCUUCUUUCUACCUGU
...(((.(.....(((((((((((((((((....))))))))))))).))))..)))). ( -32.20)
>pfo.2450 4705045 55 + 6438405
--CCAGAAGCCACUAAAAAGCCCCGUCUGGUGAUCCAGGCGGGGCUUUUUUAUAUCU--
--............((((((((((((((((....)))))))))))))))).......-- ( -28.60)
>consensus
AUCCAGCGCCCAUGAAAAAGCCCCGCCGGGCAAUCCCGGCGGGGCUUCUUUCUACCUGU
.............(((((((((((((((((....))))))))))))).))))....... (-31.14 = -30.03 +  -1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 5,322,450 – 5,322,509
Length 59
Sequences 3
Columns 59
Reading direction reverse
Mean pairwise identity 80.79
Mean single sequence MFE -33.30
Consensus MFE -31.54
Energy contribution -31.43
Covariance contribution -0.11
Combinations/Pair 1.14
Mean z-score -5.47
Structure conservation index 0.95
SVM decision value 1.61
SVM RNA-class probability 0.967100
Prediction RNA

Download alignment: ClustalW | MAF

>pao.2810 5322450 59 - 6264404
ACAGGUAGAAAGAAGCCCCGCCGGGAUUGCCCGGCGGGGCUUUUUCAUGGGCGCUGGAU
.(((((...((((((((((((((((....)))))))))))))))).....)).)))... ( -37.30)
>pau.2948 5594379 59 - 6537648
ACAGGUAGAAAGAAGCCCCGCCGGGAUUGCCCGGCGGGGCUUUUUCAUGGGCGCUGGAU
.(((((...((((((((((((((((....)))))))))))))))).....)).)))... ( -37.30)
>pfo.2450 4705045 55 - 6438405
--AGAUAUAAAAAAGCCCCGCCUGGAUCACCAGACGGGGCUUUUUAGUGGCUUCUGG--
--...(((.(((((((((((.((((....)))).))))))))))).)))........-- ( -25.30)
>consensus
ACAGGUAGAAAGAAGCCCCGCCGGGAUUGCCCGGCGGGGCUUUUUCAUGGGCGCUGGAU
.(((((...((((((((((((((((....)))))))))))))))).....)).)))... (-31.54 = -31.43 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:17:37 2007