Locus 2791

Sequence ID X_DroMel_CAF1
Location 7,479,864 – 7,480,092
Length 228
Max. P 0.972742
window4567 window4568 window4569 window4570 window4571

overview

Window 7

Location 7,479,864 – 7,479,974
Length 110
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 98.21
Mean single sequence MFE -44.00
Consensus MFE -40.70
Energy contribution -41.03
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.57
Structure conservation index 0.92
SVM decision value 1.70
SVM RNA-class probability 0.972742
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7479864 110 + 22224390
AAUUGCCCGCCCCCUUUUUGCGAAAAUACGCGCAACCUGCGCAUGUUGUUGACAUUGCGUUGAGUGUGGACAAUGUGUGUG--AGUGGGUGUUGGGUGUGUGAAAAGUGGGU
........((((.(((((..((.....((((.((.(..((((((((((((.(((((......))))).)))))))))))).--.))).))))......))..))))).)))) ( -43.20)
>DroSec_CAF1 13011 112 + 1
AAUUGCCCGCCCCCUUUUUGCGAAAAUACGCGCAACCUGCGCAUGUUGUUGACAUUGCGUUGAGUGUGGACAAUGUGUGUGAGAGUGGGUGUUGGGUGUGUGAAAAGUGGGU
........((((.(((((..((.....((((.((..((((((((((((((.(((((......))))).)))))))))))).))..)).))))......))..))))).)))) ( -43.90)
>DroSim_CAF1 13492 112 + 1
AAUUGCCCGCCCCCUUUUUGGGAAAAUACGCGCAACCUGCGCAUGUUGUUGACAUUGCGUUGAGUGUGGACAAUGUGUGUGAGAGUGGGUGUUGGGUGUGUGAAAAGUGGGU
....((((((.(((.....)))...((((((.((((((((((((((((((.(((((......))))).)))))))))))).......)).)))).)))))).....)))))) ( -44.91)
>consensus
AAUUGCCCGCCCCCUUUUUGCGAAAAUACGCGCAACCUGCGCAUGUUGUUGACAUUGCGUUGAGUGUGGACAAUGUGUGUGAGAGUGGGUGUUGGGUGUGUGAAAAGUGGGU
........((((.(((((((((..(((((.(((....(((((((((((((.(((((......))))).)))))))))))))...))).))))).....))))))))).)))) (-40.70 = -41.03 +   0.33)

alignment

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secondary structure

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Window 8

Location 7,479,864 – 7,479,974
Length 110
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 98.21
Mean single sequence MFE -24.87
Consensus MFE -23.80
Energy contribution -23.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.15
Structure conservation index 0.96
SVM decision value 0.98
SVM RNA-class probability 0.894216
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7479864 110 - 22224390
ACCCACUUUUCACACACCCAACACCCACU--CACACACAUUGUCCACACUCAACGCAAUGUCAACAACAUGCGCAGGUUGCGCGUAUUUUCGCAAAAAGGGGGCGGGCAAUU
................(((..(.(((...--.....(((((((...........))))))).......((((((.....)))))).............))))..)))..... ( -23.80)
>DroSec_CAF1 13011 112 - 1
ACCCACUUUUCACACACCCAACACCCACUCUCACACACAUUGUCCACACUCAACGCAAUGUCAACAACAUGCGCAGGUUGCGCGUAUUUUCGCAAAAAGGGGGCGGGCAAUU
.......................(((.(((((....(((((((...........))))))).......((((((.....)))))).............))))).)))..... ( -25.40)
>DroSim_CAF1 13492 112 - 1
ACCCACUUUUCACACACCCAACACCCACUCUCACACACAUUGUCCACACUCAACGCAAUGUCAACAACAUGCGCAGGUUGCGCGUAUUUUCCCAAAAAGGGGGCGGGCAAUU
.......................(((.(((((....(((((((...........))))))).......((((((.....)))))).............))))).)))..... ( -25.40)
>consensus
ACCCACUUUUCACACACCCAACACCCACUCUCACACACAUUGUCCACACUCAACGCAAUGUCAACAACAUGCGCAGGUUGCGCGUAUUUUCGCAAAAAGGGGGCGGGCAAUU
................(((..(.(((..........(((((((...........))))))).......((((((.....)))))).............))))..)))..... (-23.80 = -23.80 +   0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 7,479,939 – 7,480,052
Length 113
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 96.54
Mean single sequence MFE -42.63
Consensus MFE -35.83
Energy contribution -39.50
Covariance contribution 3.67
Combinations/Pair 1.00
Mean z-score -2.56
Structure conservation index 0.84
SVM decision value 0.50
SVM RNA-class probability 0.759041
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7479939 113 + 22224390
UGUGUG--AGUGGGUGUUGGGUGUGUGAAAAGUGGGUGGCCUGUGGA-AUGGGUUGAUGGUGACAUCUCCCAGUGGCCACUGCAAUUGACACAAUUUCGCAGGGAGACAAGGCCGG
..((((--((...((((..(.(((.(....)...(((((((......-.((((..((((....)))).))))..)))))))))).)..))))...)))))).(....)........ ( -42.10)
>DroSec_CAF1 13086 115 + 1
UGUGUGAGAGUGGGUGUUGGGUGUGUGAAAAGUGGGUGGCCUGUGGA-AUGGGGGGCUGGUGACAUCUCCCAGUGGCCACUGCAAUUGACACAAUUUCGCAGGGAGACAAGGCCGG
..(((((((....((((..(.(((.(....)...(((((((......-.(((((((.((....)))))))))..)))))))))).)..))))..))))))).(....)........ ( -43.20)
>DroSim_CAF1 13567 116 + 1
UGUGUGAGAGUGGGUGUUGGGUGUGUGAAAAGUGGGUGGCCUGUGGAAAUGGGGGGCUGGUGACAUCUCCCAGUGGCCACUGCAAUUGACACAAUUUCGCAGGGAGACAAGGCCGG
..(((((((....((((..(.(((.(....)...(((((((........(((((((.((....)))))))))..)))))))))).)..))))..))))))).(....)........ ( -42.60)
>consensus
UGUGUGAGAGUGGGUGUUGGGUGUGUGAAAAGUGGGUGGCCUGUGGA_AUGGGGGGCUGGUGACAUCUCCCAGUGGCCACUGCAAUUGACACAAUUUCGCAGGGAGACAAGGCCGG
............(((.(((..(((((.((...(((((((((........(((((((.((....)))))))))..))))))).)).)).))))).((((.....))))))).))).. (-35.83 = -39.50 +   3.67)

alignment

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secondary structure

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dotplot

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Window 0

Location 7,479,939 – 7,480,052
Length 113
Sequences 3
Columns 116
Reading direction reverse
Mean pairwise identity 96.54
Mean single sequence MFE -24.37
Consensus MFE -22.39
Energy contribution -22.39
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.92
SVM decision value 0.07
SVM RNA-class probability 0.568507
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7479939 113 - 22224390
CCGGCCUUGUCUCCCUGCGAAAUUGUGUCAAUUGCAGUGGCCACUGGGAGAUGUCACCAUCAACCCAU-UCCACAGGCCACCCACUUUUCACACACCCAACACCCACU--CACACA
..(((((.((..((((((((...........)))))).))..))((((.((((....))))..)))).-.....))))).............................--...... ( -25.10)
>DroSec_CAF1 13086 115 - 1
CCGGCCUUGUCUCCCUGCGAAAUUGUGUCAAUUGCAGUGGCCACUGGGAGAUGUCACCAGCCCCCCAU-UCCACAGGCCACCCACUUUUCACACACCCAACACCCACUCUCACACA
..(((((.(((((((((.(..((((((.....))))))..)))..)))))))((.....)).......-.....)))))..................................... ( -23.00)
>DroSim_CAF1 13567 116 - 1
CCGGCCUUGUCUCCCUGCGAAAUUGUGUCAAUUGCAGUGGCCACUGGGAGAUGUCACCAGCCCCCCAUUUCCACAGGCCACCCACUUUUCACACACCCAACACCCACUCUCACACA
..((..((((......))))...(((((.((..(..((((((....(((((((............)))))))...))))))...)..)).))))).)).................. ( -25.00)
>consensus
CCGGCCUUGUCUCCCUGCGAAAUUGUGUCAAUUGCAGUGGCCACUGGGAGAUGUCACCAGCCCCCCAU_UCCACAGGCCACCCACUUUUCACACACCCAACACCCACUCUCACACA
..(((((((((((((((.(..((((((.....))))))..)))..)))))))).....................)))))..................................... (-22.39 = -22.39 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 7,479,974 – 7,480,092
Length 118
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.04
Mean single sequence MFE -46.33
Consensus MFE -36.46
Energy contribution -40.03
Covariance contribution 3.56
Combinations/Pair 1.03
Mean z-score -2.08
Structure conservation index 0.79
SVM decision value 0.45
SVM RNA-class probability 0.740766
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7479974 118 + 22224390
GGCCUGUGGA--AUGGGUUGAUGGUGACAUCUCCCAGUGGCCACUGCAAUUGACACAAUUUCGCAGGGAGACAAGGCCGGCAGUCAGUCGGCUGGCAUUGACCAAAAGGCACUCGCACUC
.((((.(((.--.((((..((((....)))).))))..((((.(((((((((...)))))..))))(....)..))))(.(((((....))))).).....)))..)))).......... ( -46.90)
>DroSec_CAF1 13123 114 + 1
GGCCUGUGGA--AUGGGGGGCUGGUGACAUCUCCCAGUGGCCACUGCAAUUGACACAAUUUCGCAGGGAGACAAGGCCGGCAGUCAGUCGGCUGGCAUUGACCAAAAGGCACUCGC----
.((((.(((.--.(((((((.((....)))))))))..((((.(((((((((...)))))..))))(....)..))))(.(((((....))))).).....)))..))))......---- ( -47.30)
>DroSim_CAF1 13604 115 + 1
GGCCUGUGGAA-AUGGGGGGCUGGUGACAUCUCCCAGUGGCCACUGCAAUUGACACAAUUUCGCAGGGAGACAAGGCCGGCAGUCAGUCGGCUGGCAUUGACCAAAAGGCACUCGC----
.((((.(((..-.(((((((.((....)))))))))..((((.(((((((((...)))))..))))(....)..))))(.(((((....))))).).....)))..))))......---- ( -47.30)
>DroEre_CAF1 14022 113 + 1
GA---GUGAAAAGUGGGGGUCUGGUGACAUCUCCCAGUGGCCACUGCAAUUGACACAAUUUCGCAGGGAGACAAGGCCGGCAGUCAGUCGGCUGGCAUUGACCAAAAGGCACUCGC----
((---(((...(.((((((..((....)).)))))).)((((.(((((((((...)))))..))))(....)..))))(((((((((....)))))..)).))......)))))..---- ( -43.80)
>consensus
GGCCUGUGGA__AUGGGGGGCUGGUGACAUCUCCCAGUGGCCACUGCAAUUGACACAAUUUCGCAGGGAGACAAGGCCGGCAGUCAGUCGGCUGGCAUUGACCAAAAGGCACUCGC____
.....((((....(((((((.((....)))))))))((((((.(((((((((...)))))..))))(....)..(((((((.....)))))))))).....((....))))))))).... (-36.46 = -40.03 +   3.56)

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 Mon Dec 4 10:43:28 2006