Locus 6044

Sequence ID 2L_DroMel_CAF1
Location 17,023,938 – 17,024,066
Length 128
Max. P 0.899784
window9595 window9596 window9597

overview

Window 5

Location 17,023,938 – 17,024,046
Length 108
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 93.02
Mean single sequence MFE -29.10
Consensus MFE -26.35
Energy contribution -25.55
Covariance contribution -0.80
Combinations/Pair 1.32
Mean z-score -1.16
Structure conservation index 0.91
SVM decision value 0.18
SVM RNA-class probability 0.621255
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17023938 108 + 22407834
ACUGAAGGCCAAUCUGGUUGGACUUUUAUUGAGGAAAUUAUACGAGUCUAGGUAGAAAACAAAUGUUAAUGUUACUGGCCACAGGAUGUGGCAGCACCUGUUUUGUCC
......(((((.((((.((((((((.(((..........))).)))))))).)))).((((........))))..)))))(((((.(((....))))))))....... ( -31.20)
>DroSec_CAF1 131597 108 + 1
ACUGAAGGCCAAUCUGGUUGGACUUUUAUUGAGGAAAUUAUACGAGUCUAGGUGGAAAACAAAUGUUAAUGUUACUGGCCACAGGAUGUGGCAGCACCUGUUUUGUCC
......(((((.((((.((((((((.(((..........))).)))))))).)))).((((........))))..)))))(((((.(((....))))))))....... ( -29.90)
>DroSim_CAF1 134630 108 + 1
ACUGAAGGCCAAUCUGGUUGGACUUUUAUUGAGGAAAUUAUACGAGUCUAGGUGGAAAACAAAUGUUAAUGUUACUGGCCACAGGAUGUGGCAGCACCUGUUUUGUCC
......(((((.((((.((((((((.(((..........))).)))))))).)))).((((........))))..)))))(((((.(((....))))))))....... ( -29.90)
>DroEre_CAF1 133137 108 + 1
ACUGAAGGCCAAUCUGGUUGGACUUUUAUUGAGGAAAUUAUACGAGUCGAGGUGGAAAACAAAUGUUAAUGUUGCUGGCCACAGGAUAUGGCAGCACCUGCUUUGUCC
......(((((.((((.((.(((((.(((..........))).))))).)).)))).((((........))))..)))))...(((((.(((((...))))).))))) ( -30.60)
>DroYak_CAF1 137991 108 + 1
ACUGAAGGCCAAUCUGGUUGGACUUUUAUUGAGGAAAUUAUACGAGUCUAGGUGGAAAACAAAUGUUAAUGUUGCUGGCCACAGGAUAUGGCAGCACCUGUUUUGUUC
......(((((.((((.((((((((.(((..........))).)))))))).)))).((((........))))..)))))((((((((.((.....)))))))))).. ( -28.20)
>DroAna_CAF1 123332 105 + 1
---GAAAGCUAAUCUGGUUGGACUUUUAUUGAGGAAAUUGUACAAGUGUAGGUGGAAAGCGAAUGUUAAUGUUUCUGGCCACAGGAUAUGGCGGCACCUGUUUCCUUU
---((((((((((...))))).)))))...(((((((((((....((((..((((..((.((((......))))))..))))...))))....)))...)))))))). ( -24.80)
>consensus
ACUGAAGGCCAAUCUGGUUGGACUUUUAUUGAGGAAAUUAUACGAGUCUAGGUGGAAAACAAAUGUUAAUGUUACUGGCCACAGGAUAUGGCAGCACCUGUUUUGUCC
......(((((.((((.((((((((.(((..........))).)))))))).)))).((((........))))..)))))...(((((.(((((...))))).))))) (-26.35 = -25.55 +  -0.80)

alignment

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secondary structure

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dotplot

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Window 6

Location 17,023,976 – 17,024,066
Length 90
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 79.45
Mean single sequence MFE -23.92
Consensus MFE -17.50
Energy contribution -17.03
Covariance contribution -0.47
Combinations/Pair 1.25
Mean z-score -1.13
Structure conservation index 0.73
SVM decision value 0.14
SVM RNA-class probability 0.604334
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17023976 90 + 22407834
UAUACGAGUCUAGGUAGAAAACAAAUGUUAAUGUUACUGGCCACAGGAUGUGGCAGCACCUGUUUUGUCCACCUUCAC---------CUCCGCUUUUCC-----------
.....(((...(((((.((((((..((((..........(((((.....)))))))))..)))))).)..))))....---------))).........----------- ( -18.70)
>DroSec_CAF1 131635 90 + 1
UAUACGAGUCUAGGUGGAAAACAAAUGUUAAUGUUACUGGCCACAGGAUGUGGCAGCACCUGUUUUGUCCACCUCCAC---------CUGUGAUUUUCC-----------
..((((.((..((((((((((((..((((..........(((((.....)))))))))..)))))..)))))))..))---------.)))).......----------- ( -26.10)
>DroSim_CAF1 134668 90 + 1
UAUACGAGUCUAGGUGGAAAACAAAUGUUAAUGUUACUGGCCACAGGAUGUGGCAGCACCUGUUUUGUCCACCUCCAC---------CUCUGAUUUUCC-----------
.....(((...((((((((((((..((((..........(((((.....)))))))))..)))))..)))))))....---------))).........----------- ( -24.90)
>DroEre_CAF1 133175 99 + 1
UAUACGAGUCGAGGUGGAAAACAAAUGUUAAUGUUGCUGGCCACAGGAUAUGGCAGCACCUGCUUUGUCCACCUCCACUUUCUCCACUUCCUCCUUUGC-----------
.....((((.((((((((...((((.((...((((((((.((...))...))))))))...)))))))))))))).))))...................----------- ( -29.40)
>DroYak_CAF1 138029 84 + 1
UAUACGAGUCUAGGUGGAAAACAAAUGUUAAUGUUGCUGGCCACAGGAUAUGGCAGCACCUGUUUUGUUCACCUCCAG---------------CUUUCC-----------
.....(((.((.((.((..((((((......((((((((.((...))...)))))))).....))))))..)).))))---------------)))...----------- ( -20.60)
>DroAna_CAF1 123367 101 + 1
UGUACAAGUGUAGGUGGAAAGCGAAUGUUAAUGUUUCUGGCCACAGGAUAUGGCGGCACCUGUUUCCUUUUCCUGCUC---------CUGCUCCUGCUCCUGCCCCAUCC
.(((..(((((((((((..((.((((......))))))..)))(((((...((..((....))..))...)))))..)---------))))....)))..)))....... ( -23.80)
>consensus
UAUACGAGUCUAGGUGGAAAACAAAUGUUAAUGUUACUGGCCACAGGAUAUGGCAGCACCUGUUUUGUCCACCUCCAC_________CUCCGCCUUUCC___________
...........((((((((((((..((((.(((((.(((....))))))))...))))..)))))..))))))).................................... (-17.50 = -17.03 +  -0.47)

alignment

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secondary structure

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dotplot

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Window 7

Location 17,023,976 – 17,024,066
Length 90
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 79.45
Mean single sequence MFE -27.87
Consensus MFE -19.15
Energy contribution -19.85
Covariance contribution 0.70
Combinations/Pair 1.13
Mean z-score -1.96
Structure conservation index 0.69
SVM decision value 1.01
SVM RNA-class probability 0.899784
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17023976 90 - 22407834
-----------GGAAAAGCGGAG---------GUGAAGGUGGACAAAACAGGUGCUGCCACAUCCUGUGGCCAGUAACAUUAACAUUUGUUUUCUACCUAGACUCGUAUA
-----------......(((..(---------((..(((((((..((((((((((((((((.....)))).))).........))))))))))))))))..))))))... ( -27.10)
>DroSec_CAF1 131635 90 - 1
-----------GGAAAAUCACAG---------GUGGAGGUGGACAAAACAGGUGCUGCCACAUCCUGUGGCCAGUAACAUUAACAUUUGUUUUCCACCUAGACUCGUAUA
-----------........((..---------((..(((((((..((((((((((((((((.....)))).))).........))))))))))))))))..))..))... ( -30.00)
>DroSim_CAF1 134668 90 - 1
-----------GGAAAAUCAGAG---------GUGGAGGUGGACAAAACAGGUGCUGCCACAUCCUGUGGCCAGUAACAUUAACAUUUGUUUUCCACCUAGACUCGUAUA
-----------.........(((---------....(((((((..((((((((((((((((.....)))).))).........))))))))))))))))...)))..... ( -30.30)
>DroEre_CAF1 133175 99 - 1
-----------GCAAAGGAGGAAGUGGAGAAAGUGGAGGUGGACAAAGCAGGUGCUGCCAUAUCCUGUGGCCAGCAACAUUAACAUUUGUUUUCCACCUCGACUCGUAUA
-----------....................(((.((((((((..((((((((((((((((.....)))).))))).........))))))))))))))).)))...... ( -31.60)
>DroYak_CAF1 138029 84 - 1
-----------GGAAAG---------------CUGGAGGUGAACAAAACAGGUGCUGCCAUAUCCUGUGGCCAGCAACAUUAACAUUUGUUUUCCACCUAGACUCGUAUA
-----------.((...---------------((((.((.(((((((.....(((((((((.....)))).))))).........))))))).)).)).))..))..... ( -21.84)
>DroAna_CAF1 123367 101 - 1
GGAUGGGGCAGGAGCAGGAGCAG---------GAGCAGGAAAAGGAAACAGGUGCCGCCAUAUCCUGUGGCCAGAAACAUUAACAUUCGCUUUCCACCUACACUUGUACA
(..((((...(((....((((.(---------(.((((((...(....).((.....))...))))))..)).(((.........)))))))))).))))..)....... ( -26.40)
>consensus
___________GGAAAAGCGGAG_________GUGGAGGUGGACAAAACAGGUGCUGCCACAUCCUGUGGCCAGUAACAUUAACAUUUGUUUUCCACCUAGACUCGUAUA
....................................(((((((..((((((((((((((((.....)))).))).........))))))))))))))))........... (-19.15 = -19.85 +   0.70)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:35 2006