Locus 1

Sequence ID pao_1
Location 629,897 – 629,978
Length 81
Max. P 0.882116
window1 window2

overview

Window 1

Location 629,897 – 629,978
Length 81
pre Sequences 3
Columns 81
Reading direction forward
Mean pairwise identity 90.95
Mean single sequence MFE -35.11
Consensus MFE -31.07
Energy contribution -31.30
Covariance contribution 0.23
Combinations/Pair 1.09
Mean z-score -5.77
Structure conservation index 0.89
SVM decision value 0.92
SVM RNA-class probability 0.882116
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 629897 81 + 1
UGAGCCGAUUAGAGAGCCUAUUCGGCUCAUUUUGUGAGCCGAUAAUGGCAACUAUUCGGCUCACUGUCUAAUUCUCAAGCU
((((..((((((((((((.....))))).....(((((((((....(....)...)))))))))..))))))))))).... ( -36.30)
>pau_1 1 81 + 1
UGAGCUGAUUAGAGAGCCUAUUCGGCUCAUUUUGUGAGCCGAUAAUGCCAACUAUUCGGCUCACUGUCUAAUUCUCAAGCU
((((..((((((((((((.....))))).....(((((((((.............)))))))))..))))))))))).... ( -33.32)
>ppk_1 1 81 + 1
UGAGCCGAUUAGCGAGCAUAUUCGGCUCAUUUUGUGAGCUGAUAAUGGCGGCUAUUCGGCUCAUUGUCCGAUCCUCAAGCU
((((((((.((((..((....(((((((((...))))))))).....)).)))).)))))))).................. ( -35.70)
>consensus
UGAGCCGAUUAGAGAGCCUAUUCGGCUCAUUUUGUGAGCCGAUAAUGGCAACUAUUCGGCUCACUGUCUAAUUCUCAAGCU
((((((((.(((...(((...(((((((((...)))))))))....)))..))).)))))))).................. (-31.07 = -31.30 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 629,897 – 629,978
Length 81
Sequences 3
Columns 81
Reading direction reverse
Mean pairwise identity 90.95
Mean single sequence MFE -31.97
Consensus MFE -25.30
Energy contribution -26.63
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -4.89
Structure conservation index 0.79
SVM decision value 0.90
SVM RNA-class probability 0.876729
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 629897 81 - 1
AGCUUGAGAAUUAGACAGUGAGCCGAAUAGUUGCCAUUAUCGGCUCACAAAAUGAGCCGAAUAGGCUCUCUAAUCGGCUCA
..................((((((((.(((..(((....((((((((.....))))))))...)))...))).)))))))) ( -34.50)
>pau_1 1 81 - 1
AGCUUGAGAAUUAGACAGUGAGCCGAAUAGUUGGCAUUAUCGGCUCACAAAAUGAGCCGAAUAGGCUCUCUAAUCAGCUCA
....((((.((((((..(((((((((.((((....))))))))))))).....(((((.....)))))))))))...)))) ( -33.60)
>ppk_1 1 81 - 1
AGCUUGAGGAUCGGACAAUGAGCCGAAUAGCCGCCAUUAUCAGCUCACAAAAUGAGCCGAAUAUGCUCGCUAAUCGGCUCA
..................((((((((.((((...(((..((.(((((.....))))).))..)))...)))).)))))))) ( -27.80)
>consensus
AGCUUGAGAAUUAGACAGUGAGCCGAAUAGUUGCCAUUAUCGGCUCACAAAAUGAGCCGAAUAGGCUCUCUAAUCGGCUCA
..................((((((((.(((..(((....((((((((.....))))))))...)))...))).)))))))) (-25.30 = -26.63 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:45:28 2007