Locus 220

Sequence ID pao.1826
Location 3,414,640 – 3,414,700
Length 60
Max. P 0.999878
window841 window842

overview

Window 1

Location 3,414,640 – 3,414,700
Length 60
Sequences 3
Columns 64
Reading direction forward
Mean pairwise identity 76.60
Mean single sequence MFE -41.87
Consensus MFE -37.80
Energy contribution -38.30
Covariance contribution 0.50
Combinations/Pair 1.10
Mean z-score -6.19
Structure conservation index 0.90
SVM decision value 1.72
SVM RNA-class probability 0.974095
Prediction RNA

Download alignment: ClustalW | MAF

>pao.1826 3414640 60 + 6264404
CCAAG---GCACGCCCCAUCCGGGCGGCGGGCGCAAGCCCAAGGGCUCC-GCAAGGAGCCCUUU
.....---((.(((((.....)))))))((((....))))(((((((((-....))))))))). ( -44.20)
>pau.1167 4382936 60 - 6537648
CCAAG---GCACGCCCCAUCCGGGCGGCGGGCGCAAGCCCAAGGGCUCC-GCAAGGAGCCCUUU
.....---((.(((((.....)))))))((((....))))(((((((((-....))))))))). ( -44.20)
>pfo.1020 4449678 61 - 6438405
-UCACCAUGCACGUCCUUCCCGGACGGCGGGCUACGGCCCAGGGGCUCCUUCGAGGAGCCCU--
-.......((.(((((.....)))))))((((....)))).((((((((.....))))))))-- ( -37.20)
>consensus
CCAAG___GCACGCCCCAUCCGGGCGGCGGGCGCAAGCCCAAGGGCUCC_GCAAGGAGCCCUUU
........((.(((((.....)))))))((((....))))(((((((((.....))))))))). (-37.80 = -38.30 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 3,414,640 – 3,414,700
Length 60
Sequences 3
Columns 64
Reading direction reverse
Mean pairwise identity 76.60
Mean single sequence MFE -35.93
Consensus MFE -34.34
Energy contribution -34.57
Covariance contribution 0.22
Combinations/Pair 1.05
Mean z-score -3.28
Structure conservation index 0.96
SVM decision value 4.35
SVM RNA-class probability 0.999878
Prediction RNA

Download alignment: ClustalW | MAF

>pao.1826 3414640 60 - 6264404
AAAGGGCUCCUUGC-GGAGCCCUUGGGCUUGCGCCCGCCGCCCGGAUGGGGCGUGC---CUUGG
.(((((((((....-)))))))))((((....))))(((((((.....))))).))---..... ( -37.00)
>pau.1167 4382936 60 + 6537648
AAAGGGCUCCUUGC-GGAGCCCUUGGGCUUGCGCCCGCCGCCCGGAUGGGGCGUGC---CUUGG
.(((((((((....-)))))))))((((....))))(((((((.....))))).))---..... ( -37.00)
>pfo.1020 4449678 61 + 6438405
--AGGGCUCCUCGAAGGAGCCCCUGGGCCGUAGCCCGCCGUCCGGGAAGGACGUGCAUGGUGA-
--.(((((((.....)))))))..((((....))))(((((((.....))))).)).......- ( -33.80)
>consensus
AAAGGGCUCCUUGC_GGAGCCCUUGGGCUUGCGCCCGCCGCCCGGAUGGGGCGUGC___CUUGG
.(((((((((.....)))))))))((((....))))(((((((.....))))).))........ (-34.34 = -34.57 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:18:26 2007