Locus 5582

Sequence ID X_DroMel_CAF1
Location 14,421,189 – 14,421,320
Length 131
Max. P 0.766029
window9056 window9057 window9058

overview

Window 6

Location 14,421,189 – 14,421,280
Length 91
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 82.85
Mean single sequence MFE -34.03
Consensus MFE -27.41
Energy contribution -27.67
Covariance contribution 0.25
Combinations/Pair 1.27
Mean z-score -1.83
Structure conservation index 0.81
SVM decision value 0.52
SVM RNA-class probability 0.766029
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14421189 91 + 22224390
AGUCA---AUCCUUACCGCCCAGCUGCGAAGAGCGUUCCAUUGGCGCUGCCAAAGGUGCUGAUGGUGACGCUGAGUGGCAUCAGCCAGGCGAGC
.....---........((((((((.((.....))(((((((..(((((......)))))..)))).)))))))..((((....))))))))... ( -37.70)
>DroGri_CAF1 1462 92 + 1
AAUAUGU--AACGUACCGUCCUGCGGCAAAGAGCGUACCGUUAGCACUACCAAAUGUACUGAUAGUGACGCUCAGUGGCAUUAGCCAGGCGAGG
.......--..........(((.((.(...((((((((..((((.((........)).))))..)).))))))..((((....))))).))))) ( -27.60)
>DroSim_CAF1 864 94 + 1
AGUCAAUAAUCCUUACCGUCCAGCUGCGAAGAGCGUUCCAUUGGCGCUGCCAAAGGUGCUGAUGGUGACGCUGAGUGGCAUCAGCCAGGCGAGC
...........((..((...((((.((.....))(((((((..(((((......)))))..)))).)))))))..((((....))))))..)). ( -35.10)
>DroEre_CAF1 931 93 + 1
AGU-AGUGAUCCUUACCGCCCAGCUGCGAAGAGCGUUCCAUUGGCGCUGCCAAAGGUGCUGAUGGUGACGCUCAGCGGCAUCAGCCAGGCGAGG
...-......(((..((((...(((((...(((((((((((..(((((......)))))..)))).))))))).)))))....))..))..))) ( -42.60)
>DroYak_CAF1 899 93 + 1
AAU-AAUAAUCCUUACCGCCCAGCUGCAAAGAGCGUUCCAUUGGCGCUGCCAAACGUGCUGAUGGUGACGCUAAGUGGCAUCAGCCAGGCGAGU
...-............((((..((((((...((((((((((..((((........))))..)))).))))))...))....))))..))))... ( -36.50)
>DroMoj_CAF1 410 92 + 1
CAUUUGU--AACAUACCGUCCUGCGGCAAAGAGCGUACCAUUAGCACUUCCAAAUGUGCUGACAGUGACACUGAGUGGCAUUAGCCAGGCAAGG
.......--......((((((((..((.....))......(((((((........)))))))))).)))..((..((((....))))..)).)) ( -24.70)
>consensus
AAU_AGU_AUCCUUACCGCCCAGCUGCAAAGAGCGUUCCAUUGGCGCUGCCAAAGGUGCUGAUGGUGACGCUGAGUGGCAUCAGCCAGGCGAGG
................((((..((((((...((((((((((((((((........)))))))))).))))))...))....))))..))))... (-27.41 = -27.67 +   0.25)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,421,200 – 14,421,320
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.06
Mean single sequence MFE -45.17
Consensus MFE -26.33
Energy contribution -27.37
Covariance contribution 1.03
Combinations/Pair 1.38
Mean z-score -1.97
Structure conservation index 0.58
SVM decision value -0.05
SVM RNA-class probability 0.509503
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14421200 120 + 22224390
ACCGCCCAGCUGCGAAGAGCGUUCCAUUGGCGCUGCCAAAGGUGCUGAUGGUGACGCUGAGUGGCAUCAGCCAGGCGAGCGCGCCCAGGAUGCGAUUGCCGAAGGUGACGGCCACCGCCU
...........(((...((((((((((..(((((......)))))..)))).))))))..(((((....(((.(((((.(((((....).)))).)))))...)))....)))))))).. ( -54.80)
>DroVir_CAF1 14702 120 + 1
ACCGUCCUGCGGCAAAGAGUGUACCAUUAGCACUACCAAAUGUGCUAACAGUAACACUAAGUGGCAUUAGCCAAGCAAGGGCGCCUAAAAUACGAUUGCCAAAGGUGACAGCGACCGCCU
..((((((...((....(((((((..(((((((........)))))))..)).)))))...((((....)))).)).))))))...................(((((........))))) ( -37.80)
>DroGri_CAF1 1474 120 + 1
ACCGUCCUGCGGCAAAGAGCGUACCGUUAGCACUACCAAAUGUACUGAUAGUGACGCUCAGUGGCAUUAGCCAGGCGAGGACGCCCAGGAUGCGAUUGCCAAAGGUGACAGCGACCGCCU
...((((((.(((...((((((((..((((.((........)).))))..)).))))))..((((....)))).........)))))))))(((.((((....(....).)))).))).. ( -45.20)
>DroWil_CAF1 1056 120 + 1
ACCGUCCGGCAGCAAAGAGUGUACCAUUUGCACUACCAAAUGUACUAAUGGUAACACUCAAUGGCAUUAGCCAGGCCAAGGCGCCCAAUAUCCGAUUGCCAAAGGUUACCGCCACCGCAU
(((....(((......((((((((((((.(.((........)).).)))))).))))))..((((....)))).)))..((((..(.......)..))))...)))....((....)).. ( -34.70)
>DroMoj_CAF1 422 120 + 1
ACCGUCCUGCGGCAAAGAGCGUACCAUUAGCACUUCCAAAUGUGCUGACAGUGACACUGAGUGGCAUUAGCCAGGCAAGGGCGCCAAGGAUGCGAUUGCCAAAGGUCACAGCAACCGCUU
.(((.....)))....(((((.....(((((((........)))))))..(((((.((...((((....))))(((((..((((....).)))..)))))..)))))))......))))) ( -42.70)
>DroAna_CAF1 2318 120 + 1
ACCGGCCGGCAGCGAAGAGCGUGCCAUUGGCACUGCCAAAGGUGCUGAUGGUGACGCUGAGGGGCAUGAGCCACGCCAGCGCUCCGAGGACGCGGUUCCCAAAAGUGACCGCCACCGCCU
...((((((.((((...((((((((((..(((((......)))))..))))).)))))..(((((....)))...))..))))))).((..(((((..(.....)..)))))..))))). ( -55.80)
>consensus
ACCGUCCUGCGGCAAAGAGCGUACCAUUAGCACUACCAAAUGUGCUGAUAGUGACACUGAGUGGCAUUAGCCAGGCAAGGGCGCCCAGGAUGCGAUUGCCAAAGGUGACAGCCACCGCCU
..((((((((.......(((((((.((((((((........)))))))).))).))))...((((....)))).))).)))))...................(((((........))))) (-26.33 = -27.37 +   1.03)

alignment

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secondary structure

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dotplot

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Window 8

Location 14,421,200 – 14,421,320
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.06
Mean single sequence MFE -47.17
Consensus MFE -31.37
Energy contribution -31.27
Covariance contribution -0.11
Combinations/Pair 1.34
Mean z-score -1.64
Structure conservation index 0.67
SVM decision value 0.10
SVM RNA-class probability 0.582940
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14421200 120 - 22224390
AGGCGGUGGCCGUCACCUUCGGCAAUCGCAUCCUGGGCGCGCUCGCCUGGCUGAUGCCACUCAGCGUCACCAUCAGCACCUUUGGCAGCGCCAAUGGAACGCUCUUCGCAGCUGGGCGGU
.((((.((((((.......))))....((((((..((((....))))..)..)))))....)).))))(((.(((((.((.(((((...))))).))...((.....)).)))))..))) ( -49.40)
>DroVir_CAF1 14702 120 - 1
AGGCGGUCGCUGUCACCUUUGGCAAUCGUAUUUUAGGCGCCCUUGCUUGGCUAAUGCCACUUAGUGUUACUGUUAGCACAUUUGGUAGUGCUAAUGGUACACUCUUUGCCGCAGGACGGU
.(((((...))))).(((.((((((.........(((((....)))))(((....)))....(((((.(((((((((((........))))))))))))))))..)))))).)))..... ( -41.90)
>DroGri_CAF1 1474 120 - 1
AGGCGGUCGCUGUCACCUUUGGCAAUCGCAUCCUGGGCGUCCUCGCCUGGCUAAUGCCACUGAGCGUCACUAUCAGUACAUUUGGUAGUGCUAACGGUACGCUCUUUGCCGCAGGACGGU
.(((((...))))).(((.((((((..((((.(..((((....))))..)...))))....(((((((((((((((.....)))))))))(....)..)))))).)))))).)))..... ( -46.80)
>DroWil_CAF1 1056 120 - 1
AUGCGGUGGCGGUAACCUUUGGCAAUCGGAUAUUGGGCGCCUUGGCCUGGCUAAUGCCAUUGAGUGUUACCAUUAGUACAUUUGGUAGUGCAAAUGGUACACUCUUUGCUGCCGGACGGU
...((.(((((((((....(((((.(..(...(..(((......)))..))..))))))..((((((.((((((.((((........)))).)))))))))))).)))))))))..)).. ( -46.00)
>DroMoj_CAF1 422 120 - 1
AAGCGGUUGCUGUGACCUUUGGCAAUCGCAUCCUUGGCGCCCUUGCCUGGCUAAUGCCACUCAGUGUCACUGUCAGCACAUUUGGAAGUGCUAAUGGUACGCUCUUUGCCGCAGGACGGU
..((((((((((.......)))))))))).((((((((.....((..((((....))))..))((((.(((((.(((((........))))).))))))))).....)))).)))).... ( -45.40)
>DroAna_CAF1 2318 120 - 1
AGGCGGUGGCGGUCACUUUUGGGAACCGCGUCCUCGGAGCGCUGGCGUGGCUCAUGCCCCUCAGCGUCACCAUCAGCACCUUUGGCAGUGCCAAUGGCACGCUCUUCGCUGCCGGCCGGU
.((((((((((((..(.....)..)))))......((.(((((((.(.(((....)))).)))))))..)).....))))..((((((((((...)))))((.....))))))))))... ( -53.50)
>consensus
AGGCGGUGGCUGUCACCUUUGGCAAUCGCAUCCUGGGCGCCCUCGCCUGGCUAAUGCCACUCAGCGUCACCAUCAGCACAUUUGGUAGUGCUAAUGGUACGCUCUUUGCCGCAGGACGGU
..(((((.((((.......)))).)))))............(((((.((((....))))...(((((.(((((..((((........))))..)))))))))).......)))))..... (-31.37 = -31.27 +  -0.11)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:26 2006