Locus 1771

Sequence ID 2R_DroMel_CAF1
Location 6,625,235 – 6,625,342
Length 107
Max. P 0.943805
window2948 window2949

overview

Window 8

Location 6,625,235 – 6,625,342
Length 107
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 89.35
Mean single sequence MFE -38.10
Consensus MFE -29.50
Energy contribution -30.30
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.26
Structure conservation index 0.77
SVM decision value 1.34
SVM RNA-class probability 0.943805
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6625235 107 + 20766785
GGCUCGCCGGUCCAGCUGGCCUUAAUUACAGGUGUGCCUGUGCCUGUGCCUGUAUCUGUGUCUGUUACUGUGGCUGCCCACCU-UGGGCCACUGCAUUUUGAGCACUC
(((..(((((.....))))).......(((((..(....)..)))))))).......((((..(....((..(..((((....-.))))..)..))...)..)))).. ( -36.40)
>DroSec_CAF1 177318 95 + 1
GGCUCGCCGGUCCACCUGGCCUUAAUUACAGGUGUGCCUGUG------------UCUGUGGCUGUUACUGUGGCUGCCCACCU-UGGGCCACUGCAUUUUGAGCACUC
.((((...((..((((((..........))))))..)).(((------------(..((((((......((((....))))..-..)))))).))))...)))).... ( -36.40)
>DroSim_CAF1 165010 95 + 1
GGCUCGCCGGUCCACCUGGCCUUAAUUACAGGUGUGCCUGUG------------UCUGUGGCUGUUACUGUGGCUGCCCACCU-UGGGCCACUGCAUUUUGAGCACUC
.((((...((..((((((..........))))))..)).(((------------(..((((((......((((....))))..-..)))))).))))...)))).... ( -36.40)
>DroEre_CAF1 175647 96 + 1
GGCUCGCAGCUCCACCUGGCCUUAAUUACAGGUGUGCCUGUG------------UCUGUGGCUAUUGCUGUGGCUGCCCACCUUUGGGCCACGGCAUUUUGAGCACUC
.((((...........(((((.((..((((((....))))))------------..)).))))).(((((((((...(((....))))))))))))....)))).... ( -39.50)
>DroYak_CAF1 185095 96 + 1
GGCUCGCAAGUCCACCUGGCCUUAAUUACAGGUGUGCCUGUG------------GCUGUGUCCAUUUCUGUGGCUGCCCACCUUUGGGCCACUGCAGUUUGAGCACUC
(((.((((.(..((((((..........))))))..).))))------------)))(((..((...(((..(..(((((....)))))..)..)))..))..))).. ( -41.80)
>consensus
GGCUCGCCGGUCCACCUGGCCUUAAUUACAGGUGUGCCUGUG____________UCUGUGGCUGUUACUGUGGCUGCCCACCU_UGGGCCACUGCAUUUUGAGCACUC
.((((((.(((.((((((..........)))))).))).))...........................(((((..(((((....)))))..)))))....)))).... (-29.50 = -30.30 +   0.80)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 6,625,235 – 6,625,342
Length 107
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 89.35
Mean single sequence MFE -33.20
Consensus MFE -25.88
Energy contribution -26.52
Covariance contribution 0.64
Combinations/Pair 1.05
Mean z-score -1.48
Structure conservation index 0.78
SVM decision value 0.07
SVM RNA-class probability 0.566714
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6625235 107 - 20766785
GAGUGCUCAAAAUGCAGUGGCCCA-AGGUGGGCAGCCACAGUAACAGACACAGAUACAGGCACAGGCACAGGCACACCUGUAAUUAAGGCCAGCUGGACCGGCGAGCC
....((((...........((((.-....)))).(((.................((((((.....((....))...)))))).....((((....)).))))))))). ( -32.90)
>DroSec_CAF1 177318 95 - 1
GAGUGCUCAAAAUGCAGUGGCCCA-AGGUGGGCAGCCACAGUAACAGCCACAGA------------CACAGGCACACCUGUAAUUAAGGCCAGGUGGACCGGCGAGCC
....((((....(((.(((((((.-.....))..))))).)))...(((.....------------.(((((....)))))......((((....)).))))))))). ( -32.60)
>DroSim_CAF1 165010 95 - 1
GAGUGCUCAAAAUGCAGUGGCCCA-AGGUGGGCAGCCACAGUAACAGCCACAGA------------CACAGGCACACCUGUAAUUAAGGCCAGGUGGACCGGCGAGCC
....((((....(((.(((((((.-.....))..))))).)))...(((.....------------.(((((....)))))......((((....)).))))))))). ( -32.60)
>DroEre_CAF1 175647 96 - 1
GAGUGCUCAAAAUGCCGUGGCCCAAAGGUGGGCAGCCACAGCAAUAGCCACAGA------------CACAGGCACACCUGUAAUUAAGGCCAGGUGGAGCUGCGAGCC
..((((((....((((((((((((....))))).((....))............------------))).))))((((((..........)))))))))).))..... ( -33.50)
>DroYak_CAF1 185095 96 - 1
GAGUGCUCAAACUGCAGUGGCCCAAAGGUGGGCAGCCACAGAAAUGGACACAGC------------CACAGGCACACCUGUAAUUAAGGCCAGGUGGACUUGCGAGCC
..(((..((..(((..((.(((((....))))).))..)))...))..))).((------------(.((((..((((((..........))))))..)))).).)). ( -34.40)
>consensus
GAGUGCUCAAAAUGCAGUGGCCCA_AGGUGGGCAGCCACAGUAACAGCCACAGA____________CACAGGCACACCUGUAAUUAAGGCCAGGUGGACCGGCGAGCC
....((((........(((((......((((....)))).......)))))...................((..((((((..........))))))..))...)))). (-25.88 = -26.52 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:48 2006