Locus 7327

Sequence ID 2L_DroMel_CAF1
Location 20,473,753 – 20,473,938
Length 185
Max. P 0.987170
window11748 window11749 window11750 window11751

overview

Window 8

Location 20,473,753 – 20,473,873
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.08
Mean single sequence MFE -49.82
Consensus MFE -44.60
Energy contribution -44.08
Covariance contribution -0.52
Combinations/Pair 1.11
Mean z-score -1.78
Structure conservation index 0.90
SVM decision value 2.07
SVM RNA-class probability 0.987170
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20473753 120 + 22407834
UCGCACACAUGGCCGCAUUUCGGCGACUUCCAGAGAGCGGUACACUUAAGGCGGCCUGGGAAACGCCUGCAAUCUGCUGGUCGCGAACUGCAGAUUGCAUCCAUGUGCCAGGCGACCAUG
((((.(((((((.........((((..((((((...((.((.........)).))))))))..))))((((((((((.(((.....))))))))))))).)))))))....))))..... ( -48.30)
>DroSec_CAF1 26766 120 + 1
UCGCACACAUGGCCGCAUUUCGGCGGCUUCCAGAGAGCGGUACACUUAAGGCGGCCUGGGAAACGCCUGCAAUCUGCUGGCCGCGAACUGCAGAUUGCAUCCAUGUGCCAGGCGGCCAGG
((((.(.(..((((((......))))))....).).)))).........(((.((((((.(......((((((((((.(........).))))))))))......).)))))).)))... ( -52.40)
>DroSim_CAF1 28733 120 + 1
UCGCACACAUGGCCGCAUUUCGGCGGCUUCCAGAGAGCGGUACACUUAAGGCGGCCUGGGAAACGCCUGCAAUCUGCUGGCCGCGAACUGCAGAUUGCAUCCAUGUGCCAGGCGGCCAGG
((((.(.(..((((((......))))))....).).)))).........(((.((((((.(......((((((((((.(........).))))))))))......).)))))).)))... ( -52.40)
>DroEre_CAF1 29121 117 + 1
UCGCACAUGUGGCCGCAUUGCGUCCGCUUCCAGAGAGCGGUACACUUAGGGCGUCCUGGGAAACGCCUGCAAUCUGCUGGCCGCGAGCUGCAGAUUGCAUCCAUGUGCCAGGCGACC---
..(((((((.(((........((((((((.....)))))).)).((((((....))))))....)))((((((((((.(((.....)))))))))))))..))))))).........--- ( -49.20)
>DroYak_CAF1 26154 119 + 1
UCGCACACAUGGCCGCAUUUCGUCGGC-UCCAGAGAGCGGUACACUUAAGGCGUCCUGGGAAACGCCUGCAAUCUGCUGGCCGCGAACUGCAGAUUGCAUCCAUGUGCCAGGCGACCAAG
((((.(((((((((((.((((......-....))))))))).......((((((........))))))(((((((((.(........).)))))))))...))))))....))))..... ( -46.80)
>consensus
UCGCACACAUGGCCGCAUUUCGGCGGCUUCCAGAGAGCGGUACACUUAAGGCGGCCUGGGAAACGCCUGCAAUCUGCUGGCCGCGAACUGCAGAUUGCAUCCAUGUGCCAGGCGACCAGG
((((.(((((((((((.((((...........))))))))).......(((((.(....)...)))))(((((((((.(........).)))))))))...))))))....))))..... (-44.60 = -44.08 +  -0.52)

alignment

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secondary structure

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Window 9

Location 20,473,753 – 20,473,873
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.08
Mean single sequence MFE -49.64
Consensus MFE -43.10
Energy contribution -43.82
Covariance contribution 0.72
Combinations/Pair 1.08
Mean z-score -1.47
Structure conservation index 0.87
SVM decision value 0.84
SVM RNA-class probability 0.863259
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20473753 120 - 22407834
CAUGGUCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGACCAGCAGAUUGCAGGCGUUUCCCAGGCCGCCUUAAGUGUACCGCUCUCUGGAAGUCGCCGAAAUGCGGCCAUGUGUGCGA
.....((((...((((((((.((((((((((.(((...)))..)))))))))).(((((((...(((..((...((((...))))....))..)))...)))))))..)))))))))))) ( -47.10)
>DroSec_CAF1 26766 120 - 1
CCUGGCCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGGCCAGCAGAUUGCAGGCGUUUCCCAGGCCGCCUUAAGUGUACCGCUCUCUGGAAGCCGCCGAAAUGCGGCCAUGUGUGCGA
...(((.((((((...(((..((((((((((.((.....))..))))))))))..)))...)))))).)))..........(((.(.(.....(((((......)))))...).).))). ( -49.40)
>DroSim_CAF1 28733 120 - 1
CCUGGCCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGGCCAGCAGAUUGCAGGCGUUUCCCAGGCCGCCUUAAGUGUACCGCUCUCUGGAAGCCGCCGAAAUGCGGCCAUGUGUGCGA
...(((.((((((...(((..((((((((((.((.....))..))))))))))..)))...)))))).)))..........(((.(.(.....(((((......)))))...).).))). ( -49.40)
>DroEre_CAF1 29121 117 - 1
---GGUCGCCUGGCACAUGGAUGCAAUCUGCAGCUCGCGGCCAGCAGAUUGCAGGCGUUUCCCAGGACGCCCUAAGUGUACCGCUCUCUGGAAGCGGACGCAAUGCGGCCACAUGUGCGA
---((((((...((((.(((.((((((((((.((.....))..))))))))))((((((......))))))))).)))).((((((....).))))).......)))))).......... ( -51.30)
>DroYak_CAF1 26154 119 - 1
CUUGGUCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGGCCAGCAGAUUGCAGGCGUUUCCCAGGACGCCUUAAGUGUACCGCUCUCUGGA-GCCGACGAAAUGCGGCCAUGUGUGCGA
.....((((...((((((((.((((((((((.((.....))..)))))))))).(((((((...((((((.....)))).))((((....))-))....)))))))..)))))))))))) ( -51.00)
>consensus
CCUGGUCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGGCCAGCAGAUUGCAGGCGUUUCCCAGGCCGCCUUAAGUGUACCGCUCUCUGGAAGCCGCCGAAAUGCGGCCAUGUGUGCGA
......(((...((((((((.((((((((((.((.....))..)))))))))).(((((((...(((..((...((((...))))....))..)))...)))))))..))))))))))). (-43.10 = -43.82 +   0.72)

alignment

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secondary structure

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Window 0

Location 20,473,793 – 20,473,913
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.32
Mean single sequence MFE -53.66
Consensus MFE -40.44
Energy contribution -42.90
Covariance contribution 2.46
Combinations/Pair 1.16
Mean z-score -2.21
Structure conservation index 0.75
SVM decision value 1.11
SVM RNA-class probability 0.917070
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20473793 120 - 22407834
GGGCUGCGAGGCGUCGGGCGGGCACAUGGUCACAUGGUCGCAUGGUCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGACCAGCAGAUUGCAGGCGUUUCCCAGGCCGCCUUAAGUGUA
((.(((.((((((((((((((.((..((..(....)..))..)).)))))))))....(..((((((((((.(((...)))..))))))))))..)))))).))).))............ ( -52.80)
>DroSec_CAF1 26806 120 - 1
GGGAUGCGAGGCGUCGGGCGGGCAUAUGGUCGCAUGGUCGCCUGGCCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGGCCAGCAGAUUGCAGGCGUUUCCCAGGCCGCCUUAAGUGUA
...((((((((((((((((((.(((........))).))))))))).((((((...(((..((((((((((.((.....))..))))))))))..)))...)))))).)))))..)))). ( -56.40)
>DroSim_CAF1 28773 120 - 1
GGGAUGCGAGGCGUCGGGCGGGCACAUGGUCGCCUGGUCGCCUGGCCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGGCCAGCAGAUUGCAGGCGUUUCCCAGGCCGCCUUAAGUGUA
...((((.(((((((((((((.(....).)))))))).)))))(((.((((((...(((..((((((((((.((.....))..))))))))))..)))...)))))).)))....)))). ( -61.10)
>DroEre_CAF1 29161 93 - 1
------AGAGG--A--CGU-GGCACAU----------------GGUCGCCUGGCACAUGGAUGCAAUCUGCAGCUCGCGGCCAGCAGAUUGCAGGCGUUUCCCAGGACGCCCUAAGUGUA
------.....--.--...-.((((..----------------((.(((((((...(((..((((((((((.((.....))..))))))))))..)))...))))).)).))...)))). ( -38.20)
>DroYak_CAF1 26193 119 - 1
UGGCUGCGAGGCGUCGGGC-GGCACAUGGUAACAUGGUCGCUUGGUCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGGCCAGCAGAUUGCAGGCGUUUCCCAGGACGCCUUAAGUGUA
.....((.(((((((((((-(((.((((....))))))))))))).))))).))((((...((((((((((.((.....))..))))))))))((((((......))))))....)))). ( -59.80)
>consensus
GGGAUGCGAGGCGUCGGGCGGGCACAUGGUCACAUGGUCGCCUGGUCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGGCCAGCAGAUUGCAGGCGUUUCCCAGGCCGCCUUAAGUGUA
.......((((((..((.(((((.((((....))))...))))).))((((((...(((..((((((((((.((.....))..))))))))))..)))...))))))))))))....... (-40.44 = -42.90 +   2.46)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,473,833 – 20,473,938
Length 105
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 86.55
Mean single sequence MFE -51.10
Consensus MFE -43.65
Energy contribution -44.90
Covariance contribution 1.25
Combinations/Pair 1.08
Mean z-score -1.45
Structure conservation index 0.85
SVM decision value 0.13
SVM RNA-class probability 0.599004
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20473833 105 - 22407834
GUUGUGCCCUCGAUGGGCAGGAU---------------GUGGGCUGCGAGGCGUCGGGCGGGCACAUGGUCACAUGGUCGCAUGGUCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGA
(((.(((((.....))))).)))---------------(((((((((...(.(((((((((.((..((..(....)..))..)).))))))))).)..((((...))))))))))))).. ( -49.10)
>DroSec_CAF1 26846 120 - 1
GUUGUGCCCUCGAUGGGCAGGAUGUGAGGAUGUGCGAUGUGGGAUGCGAGGCGUCGGGCGGGCAUAUGGUCGCAUGGUCGCCUGGCCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGG
(((.(((((.....))))).)))((((((((.((((.((((...(((.(((((((((((((.(((........))).)))))))).))))).)))))))..)))))))).....)))).. ( -52.30)
>DroSim_CAF1 28813 120 - 1
GUUGUGCCCUCGAUGGGCAGGAUGUGAGGAUGCGCGAUGUGGGAUGCGAGGCGUCGGGCGGGCACAUGGUCGCCUGGUCGCCUGGCCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGG
(((.(((((.....))))).)))((((((((((((.(((((((..((.(((((((((((((.(....).)))))))).))))).))..))...))))).).))).)))).....)))).. ( -56.90)
>DroYak_CAF1 26233 112 - 1
GUUGGGCUCUCGAUGGGCAGGAUGUGAGGAUG-------UUGGCUGCGAGGCGUCGGGC-GGCACAUGGUAACAUGGUCGCUUGGUCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGG
(((..((((.....))))..)))(((((....-------.....(((.(((((((((((-(((.((((....))))))))))))).))))).)))......(((.....))).))))).. ( -46.10)
>consensus
GUUGUGCCCUCGAUGGGCAGGAUGUGAGGAUG______GUGGGAUGCGAGGCGUCGGGCGGGCACAUGGUCACAUGGUCGCCUGGCCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGG
(((.(((((.....))))).)))...............(((((((((((((((((((((.(((.((((....))))))))))))).))))).(((......)))....)))))))))).. (-43.65 = -44.90 +   1.25)

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 12:33:45 2006