Locus 125

Sequence ID pao.1815
Location 3,395,267 – 3,395,324
Length 57
Max. P 0.999932
window591 window592

overview

Window 1

Location 3,395,267 – 3,395,324
Length 57
Sequences 3
Columns 60
Reading direction forward
Mean pairwise identity 52.57
Mean single sequence MFE -20.10
Consensus MFE -9.20
Energy contribution -10.87
Covariance contribution 1.67
Combinations/Pair 1.17
Mean z-score -4.08
Structure conservation index 0.46
SVM decision value 4.24
SVM RNA-class probability 0.999846
Prediction RNA

Download alignment: ClustalW | MAF

>pao.1815 3395267 57 + 6264404
UAUCCC-GAAAAACCCGCC--UCAACGGCGGGUUUUUUAUUGCCUGCGAUUCGGCCUUUC
......-((((((((((((--.....))))))))))))...(((........)))..... ( -22.40)
>pau.1179 4363560 55 - 6537648
UAUCCC-GAAAAACCCGCC--UCAACGGCGGGUUUUUUAUUGCCUGCGAUUCGGUCUU--
....((-((((((((((((--.....))))))))))..((((....))))))))....-- ( -21.60)
>pel.2366 4402906 50 + 5888780
GAUUCAGAAAAAAGGCCACUGUUUCGACAGUGGACUUUUUUAUUGCGAGU----------
....(((.((((((((((((((....))))))).))))))).))).....---------- ( -16.30)
>consensus
UAUCCC_GAAAAACCCGCC__UCAACGGCGGGUUUUUUAUUGCCUGCGAUUCGG_CUU__
.......((((((((((((.......))))))))))))...................... ( -9.20 = -10.87 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 3,395,267 – 3,395,324
Length 57
Sequences 3
Columns 60
Reading direction reverse
Mean pairwise identity 52.57
Mean single sequence MFE -19.77
Consensus MFE -9.66
Energy contribution -9.67
Covariance contribution 0.01
Combinations/Pair 1.36
Mean z-score -3.84
Structure conservation index 0.49
SVM decision value 4.63
SVM RNA-class probability 0.999932
Prediction RNA

Download alignment: ClustalW | MAF

>pao.1815 3395267 57 - 6264404
GAAAGGCCGAAUCGCAGGCAAUAAAAAACCCGCCGUUGA--GGCGGGUUUUUC-GGGAUA
.....(((........)))....(((((((((((.....--))))))))))).-...... ( -23.00)
>pau.1179 4363560 55 + 6537648
--AAGACCGAAUCGCAGGCAAUAAAAAACCCGCCGUUGA--GGCGGGUUUUUC-GGGAUA
--....((((...(....).....((((((((((.....--))))))))))))-)).... ( -21.70)
>pel.2366 4402906 50 - 5888780
----------ACUCGCAAUAAAAAAGUCCACUGUCGAAACAGUGGCCUUUUUUCUGAAUC
----------.........(((((((.(((((((....))))))).)))))))....... ( -14.60)
>consensus
__AAG_CCGAAUCGCAGGCAAUAAAAAACCCGCCGUUGA__GGCGGGUUUUUC_GGGAUA
.......................(((((((((((.......)))))))))))........ ( -9.66 =  -9.67 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:13:57 2007