Locus 17

Sequence ID pao_1
Location 726,324 – 726,884
Length 560
Max. P 0.999744
window62 window63 window64 window65 window66 window67 window68 window69 window70 window71 window72

overview

Window 2

Location 726,324 – 726,444
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 99.00
Mean single sequence MFE -43.07
Consensus MFE -43.10
Energy contribution -42.97
Covariance contribution -0.14
Combinations/Pair 1.03
Mean z-score -1.94
Structure conservation index 1.00
SVM decision value 3.83
SVM RNA-class probability 0.999649
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 726324 120 + 1
GUGGGCAGUUUGACUGGGGCGGUCUCCUCCUAAAGAGUAACGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGCAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGA
....((((((.........((..(((((((...........)))))))..)).(((((((((..(((((((.....)))))))((...........))...))))))))))))))).... ( -45.40)
>pel_1 2279 120 + 1
GUGGGUAGUUUGACUGGGGCGGUCUCCUCCCAAAGAGUAACGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGA
....((((((.........((..(((((((...........)))))))..)).(((((((((..(((((((.....))))))).....((......))...))))))))))))))).... ( -42.30)
>ppk_1 2279 120 + 1
GUGGGUAGUUUGACUGGGGCGGUCUCCUCCCAAAGAGUAACGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGA
....((((((.........((..(((((((...........)))))))..)).(((((((((..(((((((.....))))))).....((......))...))))))))))))))).... ( -42.30)
>psp_1 2274 120 + 1
GUGGGUAGUUUGACUGGGGCGGUCUCCUCCUAAAGAGUAACGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGA
....((((((.........((..(((((((...........)))))))..)).(((((((((..(((((((.....))))))).....((......))...))))))))))))))).... ( -42.80)
>pss_1 2275 120 + 1
GUGGGUAGUUUGACUGGGGCGGUCUCCUCCUAAAGAGUAACGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGA
....((((((.........((..(((((((...........)))))))..)).(((((((((..(((((((.....))))))).....((......))...))))))))))))))).... ( -42.80)
>pst_1 2275 120 + 1
GUGGGUAGUUUGACUGGGGCGGUCUCCUCCUAAAGAGUAACGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGA
....((((((.........((..(((((((...........)))))))..)).(((((((((..(((((((.....))))))).....((......))...))))))))))))))).... ( -42.80)
>consensus
GUGGGUAGUUUGACUGGGGCGGUCUCCUCCUAAAGAGUAACGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGA
....((((((.........((..(((((((...........)))))))..)).(((((((((..(((((((.....))))))).....((......))...))))))))))))))).... (-43.10 = -42.97 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 3

Location 726,324 – 726,444
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 99.00
Mean single sequence MFE -32.32
Consensus MFE -31.50
Energy contribution -31.50
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.68
Structure conservation index 0.97
SVM decision value 2.79
SVM RNA-class probability 0.997041
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 726324 120 - 1
UCUCGCAGUCAAGCGCGCUUUUGCCUUUAUACUCUGCGACCGAUUUCCGACCGGUCUGAGCGCACCUUCGUACUCCUCCGUUACUCUUUAGGAGGAGACCGCCCCAGUCAAACUGCCCAC
....(((((...((((((((..((...........))(((((.........))))).)))))).....((..(((((((...........)))))))..)).....))...))))).... ( -36.60)
>pel_1 2279 120 - 1
UCUCGCAGUCAAGCGCGCUUUUGCCUUUAUACUCUACGACCGAUUUCCGACCGGUCUGAGCGCACCUUCGUACUCCUCCGUUACUCUUUGGGAGGAGACCGCCCCAGUCAAACUACCCAC
....((.(((..((((((....)).............(((((.........)))))...))))..........((((((...........))))))))).)).................. ( -31.10)
>ppk_1 2279 120 - 1
UCUCGCAGUCAAGCGCGCUUUUGCCUUUAUACUCUACGACCGAUUUCCGACCGGUCUGAGCGCACCUUCGUACUCCUCCGUUACUCUUUGGGAGGAGACCGCCCCAGUCAAACUACCCAC
....((.(((..((((((....)).............(((((.........)))))...))))..........((((((...........))))))))).)).................. ( -31.10)
>psp_1 2274 120 - 1
UCUCGCAGUCAAGCGCGCUUUUGCCUUUAUACUCUACGACCGAUUUCCGACCGGUCUGAGCGCACCUUCGUACUCCUCCGUUACUCUUUAGGAGGAGACCGCCCCAGUCAAACUACCCAC
....((.(((..((((((....)).............(((((.........)))))...))))..........((((((...........))))))))).)).................. ( -31.70)
>pss_1 2275 120 - 1
UCUCGCAGUCAAGCGCGCUUUUGCCUUUAUACUCUACGACCGAUUUCCGACCGGUCUGAGCGCACCUUCGUACUCCUCCGUUACUCUUUAGGAGGAGACCGCCCCAGUCAAACUACCCAC
....((.(((..((((((....)).............(((((.........)))))...))))..........((((((...........))))))))).)).................. ( -31.70)
>pst_1 2275 120 - 1
UCUCGCAGUCAAGCGCGCUUUUGCCUUUAUACUCUACGACCGAUUUCCGACCGGUCUGAGCGCACCUUCGUACUCCUCCGUUACUCUUUAGGAGGAGACCGCCCCAGUCAAACUACCCAC
....((.(((..((((((....)).............(((((.........)))))...))))..........((((((...........))))))))).)).................. ( -31.70)
>consensus
UCUCGCAGUCAAGCGCGCUUUUGCCUUUAUACUCUACGACCGAUUUCCGACCGGUCUGAGCGCACCUUCGUACUCCUCCGUUACUCUUUAGGAGGAGACCGCCCCAGUCAAACUACCCAC
....((.(((..((((((....)).............(((((.........)))))...))))..........((((((...........))))))))).)).................. (-31.50 = -31.50 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 726,364 – 726,484
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 99.28
Mean single sequence MFE -40.50
Consensus MFE -40.40
Energy contribution -40.40
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.00
Structure conservation index 1.00
SVM decision value 3.85
SVM RNA-class probability 0.999663
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 726364 120 + 1
CGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGCAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUC
.......((((..(((((((((..(((((((.....)))))))((...........))...)))))))))..((((..(((......)))..)))))))).......((((.....)))) ( -41.00)
>pel_1 2319 120 + 1
CGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAAACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUC
.......((((..(((((((((..(((((((.....))))))).....((......))...)))))))))..((((..(((......)))..)))))))).......((((.....)))) ( -40.40)
>ppk_1 2319 120 + 1
CGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAAACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUC
.......((((..(((((((((..(((((((.....))))))).....((......))...)))))))))..((((..(((......)))..)))))))).......((((.....)))) ( -40.40)
>psp_1 2314 120 + 1
CGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUC
.......((((..(((((((((..(((((((.....))))))).....((......))...)))))))))..((((..(((......)))..)))))))).......((((.....)))) ( -40.40)
>pss_1 2315 120 + 1
CGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUC
.......((((..(((((((((..(((((((.....))))))).....((......))...)))))))))..((((..(((......)))..)))))))).......((((.....)))) ( -40.40)
>pst_1 2315 120 + 1
CGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUC
.......((((..(((((((((..(((((((.....))))))).....((......))...)))))))))..((((..(((......)))..)))))))).......((((.....)))) ( -40.40)
>consensus
CGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUC
.......((((..(((((((((..(((((((.....))))))).....((......))...)))))))))..((((..(((......)))..)))))))).......((((.....)))) (-40.40 = -40.40 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 726,404 – 726,524
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 99.28
Mean single sequence MFE -40.22
Consensus MFE -39.27
Energy contribution -39.43
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.26
Structure conservation index 0.98
SVM decision value 3.99
SVM RNA-class probability 0.999744
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 726404 120 + 1
GUCGCAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAA
.((((((......(((((......)).)))..))))))........(((.((((...(((....)))((((.....)))).(((((((((.......))))))))))))).)))...... ( -39.90)
>pel_1 2359 120 + 1
GUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAAACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAA
.((((.((((...(((((..............((((..(((......)))..)))).(((....))).)))))........(((((((((.......))))))))))))).))))..... ( -39.80)
>ppk_1 2359 120 + 1
GUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAAACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAA
.((((.((((...(((((..............((((..(((......)))..)))).(((....))).)))))........(((((((((.......))))))))))))).))))..... ( -39.80)
>psp_1 2354 120 + 1
GUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAA
.((((.((((...(((((........((((((((((......).)).)))))))...(((....))).)))))........(((((((((.......))))))))))))).))))..... ( -40.60)
>pss_1 2355 120 + 1
GUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAA
.((((.((((...(((((........((((((((((......).)).)))))))...(((....))).)))))........(((((((((.......))))))))))))).))))..... ( -40.60)
>pst_1 2355 120 + 1
GUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAA
.((((.((((...(((((........((((((((((......).)).)))))))...(((....))).)))))........(((((((((.......))))))))))))).))))..... ( -40.60)
>consensus
GUCGUAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAA
.((((.((((...(((((..............((((..(((......)))..)))).(((....))).)))))........(((((((((.......))))))))))))).))))..... (-39.27 = -39.43 +   0.17)

alignment

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secondary structure

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dotplot

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Window 6

Location 726,444 – 726,564
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 99.56
Mean single sequence MFE -38.30
Consensus MFE -38.30
Energy contribution -38.30
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.00
Structure conservation index 1.00
SVM decision value 1.23
SVM RNA-class probability 0.933608
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 726444 120 + 1
CAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUU
......(((.((((...(((....)))((((.....)))).(((((((((.......))))))))))))).)))..........((((..(((......((......)).)))..)))). ( -38.30)
>pel_1 2399 120 + 1
CAAACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUU
......(((.((((...(((....)))((((.....)))).(((((((((.......))))))))))))).)))..........((((..(((......((......)).)))..)))). ( -38.30)
>ppk_1 2399 120 + 1
CAAACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUU
......(((.((((...(((....)))((((.....)))).(((((((((.......))))))))))))).)))..........((((..(((......((......)).)))..)))). ( -38.30)
>psp_1 2394 120 + 1
CAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUU
......(((.((((...(((....)))((((.....)))).(((((((((.......))))))))))))).)))..........((((..(((......((......)).)))..)))). ( -38.30)
>pss_1 2395 120 + 1
CAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUU
......(((.((((...(((....)))((((.....)))).(((((((((.......))))))))))))).)))..........((((..(((......((......)).)))..)))). ( -38.30)
>pst_1 2395 120 + 1
CAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUU
......(((.((((...(((....)))((((.....)))).(((((((((.......))))))))))))).)))..........((((..(((......((......)).)))..)))). ( -38.30)
>consensus
CAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUU
......(((.((((...(((....)))((((.....)))).(((((((((.......))))))))))))).)))..........((((..(((......((......)).)))..)))). (-38.30 = -38.30 +   0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 726,524 – 726,644
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -47.70
Consensus MFE -47.70
Energy contribution -47.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.35
Structure conservation index 1.00
SVM decision value 2.18
SVM RNA-class probability 0.989716
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 726524 120 + 1
AGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGU
..((((((..(((((....((((.((((((((...((.......))...))))))))(..((.((..(((((.((....)))))))..)).))..))))).)))))..))))))...... ( -47.70)
>pfs_1 2478 120 + 1
AGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGU
..((((((..(((((....((((.((((((((...((.......))...))))))))(..((.((..(((((.((....)))))))..)).))..))))).)))))..))))))...... ( -47.70)
>ppk_1 2479 120 + 1
AGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGU
..((((((..(((((....((((.((((((((...((.......))...))))))))(..((.((..(((((.((....)))))))..)).))..))))).)))))..))))))...... ( -47.70)
>psp_1 2474 120 + 1
AGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGU
..((((((..(((((....((((.((((((((...((.......))...))))))))(..((.((..(((((.((....)))))))..)).))..))))).)))))..))))))...... ( -47.70)
>pss_1 2475 120 + 1
AGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGU
..((((((..(((((....((((.((((((((...((.......))...))))))))(..((.((..(((((.((....)))))))..)).))..))))).)))))..))))))...... ( -47.70)
>pst_1 2475 120 + 1
AGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGU
..((((((..(((((....((((.((((((((...((.......))...))))))))(..((.((..(((((.((....)))))))..)).))..))))).)))))..))))))...... ( -47.70)
>consensus
AGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGU
..((((((..(((((....((((.((((((((...((.......))...))))))))(..((.((..(((((.((....)))))))..)).))..))))).)))))..))))))...... (-47.70 = -47.70 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 726,564 – 726,684
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -46.80
Consensus MFE -46.80
Energy contribution -46.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.34
Structure conservation index 1.00
SVM decision value 2.15
SVM RNA-class probability 0.989213
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 726564 120 + 1
CAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUC
......(((((.((((.....)))).)....((((((((((((((((((((((((....))))))).)))))(((((.....))))).....)))))....)))))))........)))) ( -46.80)
>pfs_1 2518 120 + 1
CAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUC
......(((((.((((.....)))).)....((((((((((((((((((((((((....))))))).)))))(((((.....))))).....)))))....)))))))........)))) ( -46.80)
>ppk_1 2519 120 + 1
CAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUC
......(((((.((((.....)))).)....((((((((((((((((((((((((....))))))).)))))(((((.....))))).....)))))....)))))))........)))) ( -46.80)
>psp_1 2514 120 + 1
CAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUC
......(((((.((((.....)))).)....((((((((((((((((((((((((....))))))).)))))(((((.....))))).....)))))....)))))))........)))) ( -46.80)
>pss_1 2515 120 + 1
CAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUC
......(((((.((((.....)))).)....((((((((((((((((((((((((....))))))).)))))(((((.....))))).....)))))....)))))))........)))) ( -46.80)
>pst_1 2515 120 + 1
CAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUC
......(((((.((((.....)))).)....((((((((((((((((((((((((....))))))).)))))(((((.....))))).....)))))....)))))))........)))) ( -46.80)
>consensus
CAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUC
......(((((.((((.....)))).)....((((((((((((((((((((((((....))))))).)))))(((((.....))))).....)))))....)))))))........)))) (-46.80 = -46.80 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 726,604 – 726,724
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -48.90
Consensus MFE -45.90
Energy contribution -48.90
Covariance contribution 3.00
Combinations/Pair 1.00
Mean z-score -2.11
Structure conservation index 0.94
SVM decision value 2.82
SVM RNA-class probability 0.997234
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 726604 120 + 1
CACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGACGUUUGAGA
(((((((((((((((....))))))).)))))(((((.....))))).....)))((.((((.((.(((....(((((((....))).))))...))).....)))))).))........ ( -48.90)
>pfs_1 2558 120 + 1
CACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGACGUUUGAGA
(((((((((((((((....))))))).)))))(((((.....))))).....)))((.((((.((.(((....(((((((....))).))))...))).....)))))).))........ ( -48.90)
>ppk_1 2559 120 + 1
CACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGACGUUUGAGA
(((((((((((((((....))))))).)))))(((((.....))))).....)))((.((((.((.(((....(((((((....))).))))...))).....)))))).))........ ( -48.90)
>psp_1 2554 120 + 1
CACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGACGUUUGAGA
(((((((((((((((....))))))).)))))(((((.....))))).....)))((.((((.((.(((....(((((((....))).))))...))).....)))))).))........ ( -48.90)
>pss_1 2555 120 + 1
CACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGACGUUUGAGA
(((((((((((((((....))))))).)))))(((((.....))))).....)))((.((((.((.(((....(((((((....))).))))...))).....)))))).))........ ( -48.90)
>pst_1 2555 120 + 1
CACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGACGUUUGAGA
(((((((((((((((....))))))).)))))(((((.....))))).....)))((.((((.((.(((....(((((((....))).))))...))).....)))))).))........ ( -48.90)
>consensus
CACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGACGUUUGAGA
(((((((((((((((....))))))).)))))(((((.....))))).....)))((.((((.((.(((....(((((((....))).))))...))).....)))))).))........ (-45.90 = -48.90 +   3.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 726,604 – 726,724
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 100.00
Mean single sequence MFE -38.50
Consensus MFE -38.50
Energy contribution -38.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 1.00
SVM decision value 3.06
SVM RNA-class probability 0.998308
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 726604 120 - 1
UCUCAAACGUCCACGGCAGAUAGGGACCGAACUGUCUCACGACGUUCUAAACCCAGCUCGCGUACCACUUUAAAUGGCGAACAGCCAUACCCUUGGGACCGGCUUCAGCCCCAGGAUGUG
......((((((..(((.....(((...((((.(((....)))))))....)))(((.((.((.(((......(((((.....))))).....))).)))))))...)))...)))))). ( -38.50)
>pfs_1 2558 120 - 1
UCUCAAACGUCCACGGCAGAUAGGGACCGAACUGUCUCACGACGUUCUAAACCCAGCUCGCGUACCACUUUAAAUGGCGAACAGCCAUACCCUUGGGACCGGCUUCAGCCCCAGGAUGUG
......((((((..(((.....(((...((((.(((....)))))))....)))(((.((.((.(((......(((((.....))))).....))).)))))))...)))...)))))). ( -38.50)
>ppk_1 2559 120 - 1
UCUCAAACGUCCACGGCAGAUAGGGACCGAACUGUCUCACGACGUUCUAAACCCAGCUCGCGUACCACUUUAAAUGGCGAACAGCCAUACCCUUGGGACCGGCUUCAGCCCCAGGAUGUG
......((((((..(((.....(((...((((.(((....)))))))....)))(((.((.((.(((......(((((.....))))).....))).)))))))...)))...)))))). ( -38.50)
>psp_1 2554 120 - 1
UCUCAAACGUCCACGGCAGAUAGGGACCGAACUGUCUCACGACGUUCUAAACCCAGCUCGCGUACCACUUUAAAUGGCGAACAGCCAUACCCUUGGGACCGGCUUCAGCCCCAGGAUGUG
......((((((..(((.....(((...((((.(((....)))))))....)))(((.((.((.(((......(((((.....))))).....))).)))))))...)))...)))))). ( -38.50)
>pss_1 2555 120 - 1
UCUCAAACGUCCACGGCAGAUAGGGACCGAACUGUCUCACGACGUUCUAAACCCAGCUCGCGUACCACUUUAAAUGGCGAACAGCCAUACCCUUGGGACCGGCUUCAGCCCCAGGAUGUG
......((((((..(((.....(((...((((.(((....)))))))....)))(((.((.((.(((......(((((.....))))).....))).)))))))...)))...)))))). ( -38.50)
>pst_1 2555 120 - 1
UCUCAAACGUCCACGGCAGAUAGGGACCGAACUGUCUCACGACGUUCUAAACCCAGCUCGCGUACCACUUUAAAUGGCGAACAGCCAUACCCUUGGGACCGGCUUCAGCCCCAGGAUGUG
......((((((..(((.....(((...((((.(((....)))))))....)))(((.((.((.(((......(((((.....))))).....))).)))))))...)))...)))))). ( -38.50)
>consensus
UCUCAAACGUCCACGGCAGAUAGGGACCGAACUGUCUCACGACGUUCUAAACCCAGCUCGCGUACCACUUUAAAUGGCGAACAGCCAUACCCUUGGGACCGGCUUCAGCCCCAGGAUGUG
......((((((..(((.....(((...((((.(((....)))))))....)))(((.((.((.(((......(((((.....))))).....))).)))))))...)))...)))))). (-38.50 = -38.50 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 726,724 – 726,844
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 99.11
Mean single sequence MFE -44.52
Consensus MFE -43.90
Energy contribution -43.77
Covariance contribution -0.14
Combinations/Pair 1.03
Mean z-score -1.35
Structure conservation index 0.99
SVM decision value 2.12
SVM RNA-class probability 0.988496
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 726724 120 + 1
UUUGAGAGGGGCUGCUCCUAGUACGAGAGGACCGGAGUGGACGAACCUCUGGUGUUCCGGUUGUCACGCCAGUGGCAUUGCCGGGUAGCUAUGUUCGGAAAAGAUAACCGCUGAAAGCAU
((((((...((((((((.......(.(((.(((((((.(......)))))))).))))(((((((((....))))))..)))))))))))...))))))..........((.....)).. ( -43.90)
>pel_1 2679 120 + 1
UUUGAGAGGGGCUGCUCCUAGUACGAGAGGACCGGAGUGGACGAACCUCUGGUGUUCCGGUUGUCACGCCAGUGGCAUUGCCGGGUAGCUAUGUUCGGAAGAGAUAACCGCUGAAAGCAU
(((.((.((((((((((.......(.(((.(((((((.(......)))))))).))))(((((((((....))))))..)))))))))))...(((....)))....)).)).))).... ( -46.00)
>pfo_1 2677 120 + 1
UUUGAGAGGGGCUGCUCCUAGUACGAGAGGACCGGAGUGGACGAACCUCUGGUGUUCCGGUUGUCACGCCAGUGGCAUUGCCGGGUAGCUAUGUUCGGGAAAGAUAACCGCUGAAAGCAU
...(((...((((((((.......(.(((.(((((((.(......)))))))).))))(((((((((....))))))..)))))))))))...)))((.........))((.....)).. ( -43.40)
>pfs_1 2678 120 + 1
UUUGAGAGGGGCUGCUCCUAGUACGAGAGGACCGGAGUGGACGAACCUCUGGUGUUCCGGUUGUCACGCCAGUGGCAUUGCCGGGUAGCUAUGUUCGGAAUAGAUAACCGCUGAAAGCAU
((((((...((((((((.......(.(((.(((((((.(......)))))))).))))(((((((((....))))))..)))))))))))...))))))..........((.....)).. ( -43.90)
>ppk_1 2679 120 + 1
UUUGAGAGGGGCUGCUCCUAGUACGAGAGGACCGGAGUGGACGAACCUCUGGUGUUCCGGUUGUCACGCCAGUGGCAUUGCCGGGUAGCUAUGUUCGGAAGAGAUAACCGCUGAAAGCAU
(((.((.((((((((((.......(.(((.(((((((.(......)))))))).))))(((((((((....))))))..)))))))))))...(((....)))....)).)).))).... ( -46.00)
>pst_1 2675 120 + 1
UUUGAGAGGGGCUGCUCCUAGUACGAGAGGACCGGAGUGGACGAACCUCUGGUGUUCCGGUUGUCACGCCAGUGGCAUUGCCGGGUAGCUAUGUUCGGAAAAGAUAACCGCUGAAAGCAU
((((((...((((((((.......(.(((.(((((((.(......)))))))).))))(((((((((....))))))..)))))))))))...))))))..........((.....)).. ( -43.90)
>consensus
UUUGAGAGGGGCUGCUCCUAGUACGAGAGGACCGGAGUGGACGAACCUCUGGUGUUCCGGUUGUCACGCCAGUGGCAUUGCCGGGUAGCUAUGUUCGGAAAAGAUAACCGCUGAAAGCAU
((((((...((((((((.......(.(((.(((((((.(......)))))))).))))(((((((((....))))))..)))))))))))...))))))..........((.....)).. (-43.90 = -43.77 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 726,764 – 726,884
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 98.39
Mean single sequence MFE -39.80
Consensus MFE -38.87
Energy contribution -38.87
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.30
Structure conservation index 0.98
SVM decision value 1.90
SVM RNA-class probability 0.981972
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 726764 120 + 1
ACGAACCUCUGGUGUUCCGGUUGUCACGCCAGUGGCAUUGCCGGGUAGCUAUGUUCGGAAAAGAUAACCGCUGAAAGCAUCUAAGCGGGAAACUUGCCUCAAGAUGAGAUCUCACUGGGA
.(((((...((((..((((((((((((....))))))..))))))..)))).)))))..........(((.(((.(.(((((..((((....).)))....)))))...).))).))).. ( -39.00)
>pel_1 2719 120 + 1
ACGAACCUCUGGUGUUCCGGUUGUCACGCCAGUGGCAUUGCCGGGUAGCUAUGUUCGGAAGAGAUAACCGCUGAAAGCAUCUAAGCGGGAAACUUGCCUCAAGAUGAGAUCUCACUGGAA
.(((((...((((..((((((((((((....))))))..))))))..)))).)))))...(((((..(((((...........))))).........(((.....))))))))....... ( -41.50)
>pf5_1 2716 120 + 1
ACGAACCUCUGGUGUUCCGGUUGUCACGCCAGUGGCAUUGCCGGGUAGCUAUGUUCGGAAAAGAUAACCGCUGAAAGCAUCUAAGCGGGAAACUUGCCUCAAGAUGAGAUCUCACUGGAA
.(((((...((((..((((((((((((....))))))..))))))..)))).)))))..........(((.(((.(.(((((..((((....).)))....)))))...).))).))).. ( -38.80)
>pfo_1 2717 120 + 1
ACGAACCUCUGGUGUUCCGGUUGUCACGCCAGUGGCAUUGCCGGGUAGCUAUGUUCGGGAAAGAUAACCGCUGAAAGCAUCUAAGCGGGAAACUUGCCUCAAGAUGAGAUCUCACUGGAA
.(((((...((((..((((((((((((....))))))..))))))..)))).)))))((.(((.(..(((((...........)))))..).))).))((.((.(((....))))).)). ( -39.20)
>pfs_1 2718 120 + 1
ACGAACCUCUGGUGUUCCGGUUGUCACGCCAGUGGCAUUGCCGGGUAGCUAUGUUCGGAAUAGAUAACCGCUGAAAGCAUCUAAGCGGGAAACUAGCCUCAAGAUGAGAUCUCACUGGAA
.(((((...((((..((((((((((((....))))))..))))))..)))).)))))..........(((.(((.(.(((((..((((....)).))....)))))...).))).))).. ( -38.80)
>ppk_1 2719 120 + 1
ACGAACCUCUGGUGUUCCGGUUGUCACGCCAGUGGCAUUGCCGGGUAGCUAUGUUCGGAAGAGAUAACCGCUGAAAGCAUCUAAGCGGGAAACUUGCCUCAAGAUGAGAUCUCACUGGGA
.(((((...((((..((((((((((((....))))))..))))))..)))).)))))...(((((..(((((...........))))).........(((.....))))))))....... ( -41.50)
>consensus
ACGAACCUCUGGUGUUCCGGUUGUCACGCCAGUGGCAUUGCCGGGUAGCUAUGUUCGGAAAAGAUAACCGCUGAAAGCAUCUAAGCGGGAAACUUGCCUCAAGAUGAGAUCUCACUGGAA
.(((((...((((..((((((((((((....))))))..))))))..)))).)))))..........(((.(((.(.(((((..((((....)).))....)))))...).))).))).. (-38.87 = -38.87 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:47:03 2007