Locus 52

Sequence ID pao.411
Location 725,688 – 726,008
Length 320
Max. P 0.994402
window276 window277 window278 window279

overview

Window 6

Location 725,688 – 725,808
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 97.50
Mean single sequence MFE -36.35
Consensus MFE -35.20
Energy contribution -35.45
Covariance contribution 0.25
Combinations/Pair 1.03
Mean z-score -1.66
Structure conservation index 0.97
SVM decision value 0.29
SVM RNA-class probability 0.670060
Prediction RNA

Download alignment: ClustalW | MAF

>pao.411 725688 120 - 6264404
CCUAGCCGGCGCACCUUCUCCCGAAGUUACGGUGCCAUUUUGCCUAGUUCCUUCACCCGAGUUCUCUCAAGCGCCUUGGUAUUCUCUACCCGACCACCUGUGUCGGUUUGGGGUACGGUU
...(((((((((..........((((..(((((........)))..))..))))....(((....)))..)))))...(((((((..(((.((((....).))))))..))))))))))) ( -38.40)
>pau.2632 1584063 120 + 6537648
CCUAGCCGGCGCACCUUCUCCCGAAGUUACGGUGCCAUUUUGCCUAGUUCCUUCACCCGAGUUCUCUCAAGCGCCUUGGUAUUCUCUACCCGACCACCUGUGUCGGUUUGGGGUACGGUU
...(((((((((..........((((..(((((........)))..))..))))....(((....)))..)))))...(((((((..(((.((((....).))))))..))))))))))) ( -38.40)
>pss.496 968361 120 - 6093698
CUCCACCGGCGCACCUUCUCCCGAAGUUACGGUGCCAUUUUGCCUAGUUCCUUCACCCGAGUUCUCUCAAGCGCCUUGGUAUUCUCUACCCAACCACCUGUGUCGGUUUGGGGUACGGUU
....((((((((..........((((..(((((........)))..))..))))....(((....)))..)))))...(((((((..(((..((.....))...)))..)))))))))). ( -34.30)
>pfo.1282 2553160 120 - 6438405
CCUCACCGGCGCACCUUCUCCCGAAGUUACGGUGCCAUUUUGCCUAGUUCCUUCACCCGAGUUCUCUCAAGCGCCUUGGUAUUCUCUACCCAACCACCUGUGUCGGUUUGGGGUACGGUU
....((((((((..........((((..(((((........)))..))..))))....(((....)))..)))))...(((((((..(((..((.....))...)))..)))))))))). ( -34.30)
>consensus
CCUAACCGGCGCACCUUCUCCCGAAGUUACGGUGCCAUUUUGCCUAGUUCCUUCACCCGAGUUCUCUCAAGCGCCUUGGUAUUCUCUACCCAACCACCUGUGUCGGUUUGGGGUACGGUU
....((((((((..........((((..(((((........)))..))..))))....(((....)))..)))))...(((((((..(((.((((....).))))))..)))))))))). (-35.20 = -35.45 +   0.25)

alignment

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secondary structure

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dotplot

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Window 7

Location 725,728 – 725,848
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.61
Mean single sequence MFE -44.45
Consensus MFE -44.56
Energy contribution -43.00
Covariance contribution -1.56
Combinations/Pair 1.21
Mean z-score -2.40
Structure conservation index 1.00
SVM decision value 2.48
SVM RNA-class probability 0.994402
Prediction RNA

Download alignment: ClustalW | MAF

>pao.411 725728 120 + 6264404
ACCAAGGCGCUUGAGAGAACUCGGGUGAAGGAACUAGGCAAAAUGGCACCGUAACUUCGGGAGAAGGUGCGCCGGCUAGGGUGAAGGAUUUACUCCGUAAGCUCUGGCUGGUCGAAGAUA
.((....((((((((....))))))))..))..............(((((....(....).....)))))((((((((((((...(((.....)))....))))))))))))........ ( -45.20)
>pau.2632 1584103 120 - 6537648
ACCAAGGCGCUUGAGAGAACUCGGGUGAAGGAACUAGGCAAAAUGGCACCGUAACUUCGGGAGAAGGUGCGCCGGCUAGGGUGAAGGAUUUACUCCGUAAGCUCUGGCUGGUCGAAGAUA
.((....((((((((....))))))))..))..............(((((....(....).....)))))((((((((((((...(((.....)))....))))))))))))........ ( -45.20)
>pss.496 968401 120 + 6093698
ACCAAGGCGCUUGAGAGAACUCGGGUGAAGGAACUAGGCAAAAUGGCACCGUAACUUCGGGAGAAGGUGCGCCGGUGGAGGUGAAGCAUUUACUGCGUAAGCCCCUGCCGGUCGAAGAUA
.((....((((((((....))))))))..))..............(((((....(....).....)))))(((((..(.(((...(((.....)))....))).)..)))))........ ( -42.40)
>pfo.1282 2553200 120 + 6438405
ACCAAGGCGCUUGAGAGAACUCGGGUGAAGGAACUAGGCAAAAUGGCACCGUAACUUCGGGAGAAGGUGCGCCGGUGAGGGUGAAGCACUUGCUGCGUAAGCCCACGCCGGUCGAAGAUA
.((....((((((((....))))))))..))..............(((((....(....).....)))))(((((((.((((...(((.....)))....)))).)))))))........ ( -45.00)
>consensus
ACCAAGGCGCUUGAGAGAACUCGGGUGAAGGAACUAGGCAAAAUGGCACCGUAACUUCGGGAGAAGGUGCGCCGGCGAGGGUGAAGCAUUUACUCCGUAAGCCCUGGCCGGUCGAAGAUA
.((....((((((((....))))))))..))..............(((((.....(((....))))))))((((((((((((...(((.....)))....))))))))))))........ (-44.56 = -43.00 +  -1.56)

alignment

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secondary structure

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dotplot

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Window 8

Location 725,768 – 725,888
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.61
Mean single sequence MFE -42.25
Consensus MFE -43.96
Energy contribution -42.40
Covariance contribution -1.56
Combinations/Pair 1.21
Mean z-score -1.54
Structure conservation index 1.04
SVM decision value 0.91
SVM RNA-class probability 0.879882
Prediction RNA

Download alignment: ClustalW | MAF

>pao.411 725768 120 + 6264404
AAAUGGCACCGUAACUUCGGGAGAAGGUGCGCCGGCUAGGGUGAAGGAUUUACUCCGUAAGCUCUGGCUGGUCGAAGAUACCAGGCCGCUGCGACUGUUUAUUAAAAACACAGCACUCUG
....(((...(((.((((....)))).)))((((((((((((...(((.....)))....))))))))))))............)))((((....(((((.....)))))))))...... ( -43.00)
>pau.2632 1584143 120 - 6537648
AAAUGGCACCGUAACUUCGGGAGAAGGUGCGCCGGCUAGGGUGAAGGAUUUACUCCGUAAGCUCUGGCUGGUCGAAGAUACCAGGCCGCUGCGACUGUUUAUUAAAAACACAGCACUCUG
....(((...(((.((((....)))).)))((((((((((((...(((.....)))....))))))))))))............)))((((....(((((.....)))))))))...... ( -43.00)
>pss.496 968441 120 + 6093698
AAAUGGCACCGUAACUUCGGGAGAAGGUGCGCCGGUGGAGGUGAAGCAUUUACUGCGUAAGCCCCUGCCGGUCGAAGAUACCAGGCCGCUGCGACUGUUUAUUAAAAACACAGCACUCUG
....(((...(((.((((....)))).)))(((((..(.(((...(((.....)))....))).)..)))))............)))((((....(((((.....)))))))))...... ( -40.20)
>pfo.1282 2553240 120 + 6438405
AAAUGGCACCGUAACUUCGGGAGAAGGUGCGCCGGUGAGGGUGAAGCACUUGCUGCGUAAGCCCACGCCGGUCGAAGAUACCAGGCCGCUGCGACUGUUUAUUAAAAACACAGCACUCUG
....(((...(((.((((....)))).)))(((((((.((((...(((.....)))....)))).)))))))............)))((((....(((((.....)))))))))...... ( -42.80)
>consensus
AAAUGGCACCGUAACUUCGGGAGAAGGUGCGCCGGCGAGGGUGAAGCAUUUACUCCGUAAGCCCUGGCCGGUCGAAGAUACCAGGCCGCUGCGACUGUUUAUUAAAAACACAGCACUCUG
....(((...(((.((((....)))).)))((((((((((((...(((.....)))....))))))))))))............)))((((....(((((.....)))))))))...... (-43.96 = -42.40 +  -1.56)

alignment

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secondary structure

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dotplot

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Window 9

Location 725,888 – 726,008
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 98.75
Mean single sequence MFE -46.25
Consensus MFE -45.75
Energy contribution -46.25
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.58
Structure conservation index 0.99
SVM decision value 1.31
SVM RNA-class probability 0.940499
Prediction RNA

Download alignment: ClustalW | MAF

>pao.411 725888 120 + 6264404
CAAACACGAAAGUGGACGUAUAGGGUGUGACGCCUGCCCGGUGCCGGAAGGUUAAUUGAUGGGGUUAGCGCAAGCGAAGCUCUUGAUCGAAGCCCCGGUAAACGGCGGCCGUAACUAUAA
....(((....)))....(((((......(((.(((((...((((((..((((..(((((((((((.((....))..))))))..)))))))))))))))...))))).)))..))))). ( -46.70)
>pau.2632 1584263 120 - 6537648
CAAACACGAAAGUGGACGUAUAGGGUGUGACGCCUGCCCGGUGCCGGAAGGUUAAUUGAUGGGGUUAGCGCAAGCGAAGCUCUUGAUCGAAGCCCCGGUAAACGGCGGCCGUAACUAUAA
....(((....)))....(((((......(((.(((((...((((((..((((..(((((((((((.((....))..))))))..)))))))))))))))...))))).)))..))))). ( -46.70)
>pss.496 968561 120 + 6093698
CAAACACGAAAGUGGACGUAUAGGGUGUGACGCCUGCCCGGUGCCGGAAGGUUAAUUGAUGGGGUUAGCGCAAGCGAAGCUCUUGAUCGAAGCCCCGGUAAACGGCGGCCGUAACUAUAA
....(((....)))....(((((......(((.(((((...((((((..((((..(((((((((((.((....))..))))))..)))))))))))))))...))))).)))..))))). ( -46.70)
>pfo.1282 2553360 120 + 6438405
CAAACACGAAAGUGGACGUAUAGGGUGUGACGCCUGCCCGGUGCCGGAAGGUUAAUUGAUGGGGUUAGCUAACGCGAAGCUCUUGAUCGAAGCCCCGGUAAACGGCGGCCGUAACUAUAA
....(((....)))....(((((......(((.(((((...((((((..((((..(((((((((((.((....))..))))))..)))))))))))))))...))))).)))..))))). ( -44.90)
>consensus
CAAACACGAAAGUGGACGUAUAGGGUGUGACGCCUGCCCGGUGCCGGAAGGUUAAUUGAUGGGGUUAGCGCAAGCGAAGCUCUUGAUCGAAGCCCCGGUAAACGGCGGCCGUAACUAUAA
....(((....)))....(((((......(((.(((((...((((((..((((..(((((((((((.((....))..))))))..)))))))))))))))...))))).)))..))))). (-45.75 = -46.25 +   0.50)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:08:17 2007