Locus 27

Sequence ID 2L_DroMel_CAF1
Location 102,283 – 102,449
Length 166
Max. P 0.983180
window40 window41 window42

overview

Window 0

Location 102,283 – 102,394
Length 111
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 81.94
Mean single sequence MFE -36.85
Consensus MFE -22.96
Energy contribution -23.03
Covariance contribution 0.06
Combinations/Pair 1.28
Mean z-score -2.26
Structure conservation index 0.62
SVM decision value 0.90
SVM RNA-class probability 0.878111
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 102283 111 + 22407834
GGU---------UGUUAGAUUGACUAAGAGUGAGCUCCGUGAGGCAAUGGUAUCGAACGCGACCUAUCGGUAUUCGCGAAACUUUCGAGUAUACUAUCGAUGUUUUUAUUUAUCGAUAGU
(((---------(((..(((..((((.(((....)))(....)....)))))))....)))))).....(((((((.........)))))))((((((((((........)))))))))) ( -29.00)
>DroSec_CAF1 2070 110 + 1
GUU---------UGUUAGAUGAACUGAGAGCGAGCUCAGUGAGGCAAUGGUACCGCACGAGCCCUAUCGGUAUCCGCGAAAGUUUCGA-UAUGCUAUCGAUGCUUUUAUUUAUCGAUAGU
(((---------(.((((.....))))))))..((((.(((.((........)).))))))).(((((((((.....((((((.((((-((...)))))).))))))...))))))))). ( -33.30)
>DroSim_CAF1 2070 110 + 1
GUU---------UGUUAGAUGAACUGAGAGCGAGCUCCGUGAGGCAAUGGUACCGCACGAGGCCUAUCGGUAUUCGCGAAAGUUUCGA-UAUGCUAUCGAUGCUUUUAUUUAUCGAUAGU
(((---------(.((((.....))))))))..((..((((.((........)).))))..))(((((((((.....((((((.((((-((...)))))).))))))...))))))))). ( -34.20)
>DroYak_CAF1 7152 120 + 1
GGUCCUCUUUGGUGUUAGAUGAACUGAGAGUGGGCUCCGUGAGGUAUCAUUGCCUCACGAGGCCUAUCGGUUUUAGCGAAACUAUCGAGUGUACUAUCGAUGUCUUUAUUCAUCGAUGGU
.(..(((..((((....(..(((((((...(((((..(((((((((....)))))))))..))))))))))))...)...))))..)))..)((((((((((........)))))))))) ( -50.90)
>consensus
GGU_________UGUUAGAUGAACUGAGAGCGAGCUCCGUGAGGCAAUGGUACCGCACGAGGCCUAUCGGUAUUCGCGAAACUUUCGA_UAUACUAUCGAUGCUUUUAUUUAUCGAUAGU
............(.((((.....)))).)(((((..(((..((((..((........))..))))..)))..)))))...............((((((((((........)))))))))) (-22.96 = -23.03 +   0.06)

alignment

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secondary structure

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Window 1

Location 102,314 – 102,433
Length 119
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 88.22
Mean single sequence MFE -35.00
Consensus MFE -24.29
Energy contribution -23.98
Covariance contribution -0.31
Combinations/Pair 1.30
Mean z-score -1.92
Structure conservation index 0.69
SVM decision value 0.31
SVM RNA-class probability 0.684161
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 102314 119 + 22407834
GAGGCAAUGGUAUCGAACGCGACCUAUCGGUAUUCGCGAAACUUUCGAGUAUACUAUCGAUGUUUUUAUUUAUCGAUAGUGUCGGCUUUAAUUACACGUAAACUCAGAUAGUUUGCCGG
..(((((.(.((((...(((((((....))...)))))........((((((((((((((((........))))))))))))((............))...)))).)))).)))))).. ( -35.60)
>DroSec_CAF1 2101 118 + 1
GAGGCAAUGGUACCGCACGAGCCCUAUCGGUAUCCGCGAAAGUUUCGA-UAUGCUAUCGAUGCUUUUAUUUAUCGAUAGUGUCGGCUUUAAUUACACGUAAACUCAGAUAAUUUGCCGG
..(((((.(....)((.(((.(.(((((((((.....((((((.((((-((...)))))).))))))...))))))))).))))))..........................))))).. ( -32.30)
>DroSim_CAF1 2101 118 + 1
GAGGCAAUGGUACCGCACGAGGCCUAUCGGUAUUCGCGAAAGUUUCGA-UAUGCUAUCGAUGCUUUUAUUUAUCGAUAGUGUCGGCUUUAAUUACACGUAAACUCAGAUAAUUUGCCGG
..(((((.(....)((.(((.((.((((((((.....((((((.((((-((...)))))).))))))...)))))))))).)))))..........................))))).. ( -33.50)
>DroYak_CAF1 7192 119 + 1
GAGGUAUCAUUGCCUCACGAGGCCUAUCGGUUUUAGCGAAACUAUCGAGUGUACUAUCGAUGUCUUUAUUCAUCGAUGGUGUCGGCUUCAAUUACACGUAAACUCAGAUAAUUCGCCGG
((((((....))))))..((((((....)))))).(((((..((((((((.(((((((((((........))))))))((((...........))))))).)))).)))).)))))... ( -38.60)
>consensus
GAGGCAAUGGUACCGCACGAGGCCUAUCGGUAUUCGCGAAACUUUCGA_UAUACUAUCGAUGCUUUUAUUUAUCGAUAGUGUCGGCUUUAAUUACACGUAAACUCAGAUAAUUUGCCGG
..(((((.(((((((............)))))))..........((((...(((((((((((........)))))))))))))))...........................))))).. (-24.29 = -23.98 +  -0.31)

alignment

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secondary structure

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dotplot

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Window 2

Location 102,354 – 102,449
Length 95
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 90.38
Mean single sequence MFE -22.93
Consensus MFE -21.15
Energy contribution -20.15
Covariance contribution -1.00
Combinations/Pair 1.23
Mean z-score -2.24
Structure conservation index 0.92
SVM decision value 1.94
SVM RNA-class probability 0.983180
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 102354 95 + 22407834
ACUUUCGAGUAUACUAUCGAUGUUUUUAUUUAUCGAUAGUGUCGGCUUUAAUUACACGUAAACUCAGAUAGUUUGCCGGUUAAA-AAGACAAUAAA
............((((((((((........))))))))))(((...(((((((....(((((((.....))))))).)))))))-..)))...... ( -22.20)
>DroSec_CAF1 2141 94 + 1
AGUUUCGA-UAUGCUAUCGAUGCUUUUAUUUAUCGAUAGUGUCGGCUUUAAUUACACGUAAACUCAGAUAAUUUGCCGGCUAAA-AAGGCAAUAAA
.((((...-...((((((((((........))))))))))((((((...(((((...(......)...))))).))))))....-.))))...... ( -22.00)
>DroSim_CAF1 2141 94 + 1
AGUUUCGA-UAUGCUAUCGAUGCUUUUAUUUAUCGAUAGUGUCGGCUUUAAUUACACGUAAACUCAGAUAAUUUGCCGGCUAAA-AAGGCAAUAAA
.((((...-...((((((((((........))))))))))((((((...(((((...(......)...))))).))))))....-.))))...... ( -22.00)
>DroYak_CAF1 7232 96 + 1
ACUAUCGAGUGUACUAUCGAUGUCUUUAUUCAUCGAUGGUGUCGGCUUCAAUUACACGUAAACUCAGAUAAUUCGCCGGCUAAAAAAGGCCACAAA
..((((((((.(((((((((((........))))))))((((...........))))))).)))).)))).......((((......))))..... ( -25.50)
>consensus
ACUUUCGA_UAUACUAUCGAUGCUUUUAUUUAUCGAUAGUGUCGGCUUUAAUUACACGUAAACUCAGAUAAUUUGCCGGCUAAA_AAGGCAAUAAA
............((((((((((........))))))))))((((((...(((((...(......)...))))).))))))................ (-21.15 = -20.15 +  -1.00)

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 09:23:38 2006