Locus 3465

Sequence ID 3L_DroMel_CAF1
Location 10,190,435 – 10,190,595
Length 160
Max. P 0.915468
window5406 window5407 window5408

overview

Window 6

Location 10,190,435 – 10,190,555
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.75
Mean single sequence MFE -37.70
Consensus MFE -30.28
Energy contribution -32.20
Covariance contribution 1.92
Combinations/Pair 1.10
Mean z-score -1.66
Structure conservation index 0.80
SVM decision value 0.54
SVM RNA-class probability 0.775493
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10190435 120 + 23771897
UUGAAGAACUUUGAUACCAUGGAACUUCCAUCUAUAUCGGAGCUAUCGUUGCUGCUGGACAAGAGCACCCAGGUGACCAAGCGCAGGAGCUCAAUUGAAAAGGAGCGAAGAUCCUUCAAG
((((((..((((((((..((((.....))))...))))))))..(((.(((((.((...(((((((.((...(((......))).)).))))..)))...)).))))).))).)))))). ( -36.40)
>DroSec_CAF1 66891 120 + 1
UCGAAGAACUUUGAUACCAUGGUACUUCCAUCUAUAUCGGAGCUAUCGUUGCUGCUGGACAAGAGCUCCCAAGUGACCAAGCGCAGGAGCUCAACUGUCAAGGAGCGAAGAUCCUUCAAG
..((((..((((((((..((((.....))))...))))))))..(((.(((((.((.((((.(((((((...(((......))).)))))))...)))).)).))))).))).))))... ( -42.40)
>DroSim_CAF1 70851 120 + 1
UUGAAGAACUUUGAUACCAUGUUACUUCCAUCUAUAUCGGAGCUAUCGUUGCUGCUGGACAAGAGCUCCCAAGUGACCAAGCGCAGGAGCUCAACUGUCAAGGAGCGAAGAUCCUUCAAG
((((((..((((((((..(((.......)))...))))))))..(((.(((((.((.((((.(((((((...(((......))).)))))))...)))).)).))))).))).)))))). ( -39.60)
>DroEre_CAF1 71108 120 + 1
GUGAGGAACUUCGAUAACCUGGUUCUGCCAUCCAUAUCGGAGCUAUCGCUGCUGCUGGAGAAGAGCGUCCAGGUGAACAAGCGCAGGAACUCAAGUAUCAAGGAGCGAAGAUCCUUCAAG
.((((((.(((((....(((.(((((....((((...((((((....))).))).))))..))))).(((..(((......))).)))............)))..))))).))).))).. ( -34.40)
>DroYak_CAF1 70830 120 + 1
UUGAAGAACUUCAACAACCUGGUACUUCCAUCCAUGUCGGAGCUAUCGUUGCUGCUGGAGAAGAGCACCCAACUGACCAGGCGCCGGAGCUCAAGUGCCAAGGAGCGAAGAUCCUUCAAG
((((((..((((.....((((((((((...((((.((.(.(((....))).).))))))...((((.((...((....)).....)).))))))))))).)))...))))...)))))). ( -35.70)
>consensus
UUGAAGAACUUUGAUACCAUGGUACUUCCAUCUAUAUCGGAGCUAUCGUUGCUGCUGGACAAGAGCACCCAAGUGACCAAGCGCAGGAGCUCAACUGUCAAGGAGCGAAGAUCCUUCAAG
((((((..((((((((..((((.....))))...))))))))..(((.(((((.((.((((.((((.((...(((......))).)).))))...)))).)).))))).))).)))))). (-30.28 = -32.20 +   1.92)

alignment

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secondary structure

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dotplot

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Window 7

Location 10,190,475 – 10,190,595
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.33
Mean single sequence MFE -43.48
Consensus MFE -32.10
Energy contribution -32.62
Covariance contribution 0.52
Combinations/Pair 1.14
Mean z-score -2.53
Structure conservation index 0.74
SVM decision value 1.10
SVM RNA-class probability 0.915468
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10190475 120 + 23771897
AGCUAUCGUUGCUGCUGGACAAGAGCACCCAGGUGACCAAGCGCAGGAGCUCAAUUGAAAAGGAGCGAAGAUCCUUCAAGUUCGCCUGGGCUGCUCCUUUGGCGAAGCAGGAAAAAUACA
.(.(((..((.(((((...(((((((((((((((((.(.(((......)))...((((..((((.......))))))))).))))))))).)))))..)))....))))).))..)))). ( -44.10)
>DroSec_CAF1 66931 120 + 1
AGCUAUCGUUGCUGCUGGACAAGAGCUCCCAAGUGACCAAGCGCAGGAGCUCAACUGUCAAGGAGCGAAGAUCCUUCAAGUUCGCCUGGGUUGCUCCUUUGGCGAAGCAGGAAAAAUACA
.....((.(((((.((.((((.(((((((...(((......))).)))))))...)))).)).))))).))((((.(...((((((.(((.....)))..))))))).))))........ ( -43.30)
>DroSim_CAF1 70891 120 + 1
AGCUAUCGUUGCUGCUGGACAAGAGCUCCCAAGUGACCAAGCGCAGGAGCUCAACUGUCAAGGAGCGAAGAUCCUUCAAGUUCGCCUGGGCUGCUCCUUUGGCGAAGCAGGAAAAAUACA
.(.(((..((.(((((......(((((((...(((......))).)))))))...(((((((((((((((...)))).(((((....)))))))))).)))))).))))).))..)))). ( -43.50)
>DroEre_CAF1 71148 120 + 1
AGCUAUCGCUGCUGCUGGAGAAGAGCGUCCAGGUGAACAAGCGCAGGAACUCAAGUAUCAAGGAGCGAAGAUCCUUCAAGUUCGCCUGGGCUGCUCCUUUAACGAAGCAGGAGAAAUACU
...(((..((.(((((..(((.((((((((((((((((..((.(..((((....)).))...).))((((...))))..)))))))))))).)))).))).....))))).))..))).. ( -45.70)
>DroYak_CAF1 70870 120 + 1
AGCUAUCGUUGCUGCUGGAGAAGAGCACCCAACUGACCAGGCGCCGGAGCUCAAGUGCCAAGGAGCGAAGAUCCUUCAAGUUCGCCCUGGCUGCUCCUCUGCCAAAGCAGAAAAAAUACU
........(((((..((((((.(((((.((.........(((((..(....)..))))).(((.(((((((....))...)))))))))).))))).))).))).))))).......... ( -40.80)
>consensus
AGCUAUCGUUGCUGCUGGACAAGAGCACCCAAGUGACCAAGCGCAGGAGCUCAACUGUCAAGGAGCGAAGAUCCUUCAAGUUCGCCUGGGCUGCUCCUUUGGCGAAGCAGGAAAAAUACA
...(((..((.(((((......((((.((...(((......))).)).))))...(((((((((((((((...))))......((....)).)))))).))))).))))).))..))).. (-32.10 = -32.62 +   0.52)

alignment

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secondary structure

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dotplot

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Window 8

Location 10,190,475 – 10,190,595
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.33
Mean single sequence MFE -40.06
Consensus MFE -31.86
Energy contribution -32.06
Covariance contribution 0.20
Combinations/Pair 1.16
Mean z-score -1.37
Structure conservation index 0.80
SVM decision value -0.04
SVM RNA-class probability 0.513097
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10190475 120 - 23771897
UGUAUUUUUCCUGCUUCGCCAAAGGAGCAGCCCAGGCGAACUUGAAGGAUCUUCGCUCCUUUUCAAUUGAGCUCCUGCGCUUGGUCACCUGGGUGCUCUUGUCCAGCAGCAACGAUAGCU
..((((.((.(((((..((...(((((((.((((((.((....((((((.......))))))....(..(((......)))..))).)))))))))))))))..))))).)).))))... ( -40.90)
>DroSec_CAF1 66931 120 - 1
UGUAUUUUUCCUGCUUCGCCAAAGGAGCAACCCAGGCGAACUUGAAGGAUCUUCGCUCCUUGACAGUUGAGCUCCUGCGCUUGGUCACUUGGGAGCUCUUGUCCAGCAGCAACGAUAGCU
..((((.((.((((((((((...((......)).))))).......((((....((((((((((....((((......)))).))))...))))))....))))))))).)).))))... ( -37.70)
>DroSim_CAF1 70891 120 - 1
UGUAUUUUUCCUGCUUCGCCAAAGGAGCAGCCCAGGCGAACUUGAAGGAUCUUCGCUCCUUGACAGUUGAGCUCCUGCGCUUGGUCACUUGGGAGCUCUUGUCCAGCAGCAACGAUAGCU
..((((.((.(((((......(((((((.((....))......((((...)))))))))))(((((..(((((((((.(........).)))))))))))))).))))).)).))))... ( -40.10)
>DroEre_CAF1 71148 120 - 1
AGUAUUUCUCCUGCUUCGUUAAAGGAGCAGCCCAGGCGAACUUGAAGGAUCUUCGCUCCUUGAUACUUGAGUUCCUGCGCUUGUUCACCUGGACGCUCUUCUCCAGCAGCAGCGAUAGCU
........(((((((..(((..(((((.((((((((.((((..(.((((.....((((..........))))))))...)..)))).)))))..))))))))..)))))))).))..... ( -37.60)
>DroYak_CAF1 70870 120 - 1
AGUAUUUUUUCUGCUUUGGCAGAGGAGCAGCCAGGGCGAACUUGAAGGAUCUUCGCUCCUUGGCACUUGAGCUCCGGCGCCUGGUCAGUUGGGUGCUCUUCUCCAGCAGCAACGAUAGCU
..((((.((.(((((..((.(((((((((.((((((((((..(.....)..)))))))((.(((.((.(....).)).))).)).....))).)))))))))))))))).)).))))... ( -44.00)
>consensus
UGUAUUUUUCCUGCUUCGCCAAAGGAGCAGCCCAGGCGAACUUGAAGGAUCUUCGCUCCUUGACACUUGAGCUCCUGCGCUUGGUCACUUGGGAGCUCUUGUCCAGCAGCAACGAUAGCU
..((((.((.(((((..((...((((((.(((((((.((.(..(.((((.....((((..........))))))))...)..).)).)))))))))))))))..))))).)).))))... (-31.86 = -32.06 +   0.20)

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 10:58:44 2006