Locus 7197

Sequence ID 2L_DroMel_CAF1
Location 20,213,667 – 20,213,819
Length 152
Max. P 0.987459
window11491 window11492 window11493

overview

Window 1

Location 20,213,667 – 20,213,787
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.00
Mean single sequence MFE -35.66
Consensus MFE -33.84
Energy contribution -33.40
Covariance contribution -0.44
Combinations/Pair 1.09
Mean z-score -1.25
Structure conservation index 0.95
SVM decision value 0.57
SVM RNA-class probability 0.784341
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20213667 120 + 22407834
GCAGGACUCUUUUUUGUGCUCCUGCUCCUUGCUUUUUCCGGUCUGCAUAAUUACAGGGACGUGAGGGCUUUAAACUUCAUGCACUUGGCUGUGCACGCGUGUGUGCGUUCUAAAAAAGAA
(((((((.(......).).))))))......((((((..((...(((((....((((..(((((((........)))))))..))))..)))))(((((....)))))))..)))))).. ( -35.90)
>DroSec_CAF1 54880 120 + 1
GCAGGACUCUUUUUUGUGCUCCUGCUCCUUGCUUUUUCCGGUCUGCAUAAUUACAGGAACGUGAGGGCUUUAAACUUCAUGCACUUGGCUGUGCAUGCGUGUGUGCGUUCUAAAAAGGAA
(((((((.(......).).))))))(((((((............)).........(((((((((((........))))((((((......))))))........)))))))...))))). ( -35.60)
>DroSim_CAF1 32052 120 + 1
GCAGGACUCUUUUUUGUGCUCCUGCUCCUUGCUUUUUCCGGUCUGCAUAAUUACAGGGACGUGAGGGCUUUAAACUUCAUGCACUUGGCUGUGCAUGCGUGUGUGCGUUCUAAAAAAGAA
(((((((.(......).).))))))......((((((..((..((((((....((((..(((((((........)))))))..))))((.......))...))))))..)).)))))).. ( -35.50)
>DroEre_CAF1 10332 120 + 1
GCAGGACUCUUUUUUGUGCUCCUGCUCCUUGCUUUUUCCGGUCUGCAUAAUUACAGGGACGUGAGGGCUUUAAACUUCAUGCACUUGGCUGUGCAUACGUGUUUGCGUUCUAAAAAAGAA
(((((((.(......).).))))))......((((((..((..((((((....((((..(((((((........)))))))..))))..)))))).((((....))))))..)))))).. ( -34.40)
>DroYak_CAF1 8070 119 + 1
GCAGGACUCUUUUUUGUGCUCCUGCUCCUUGCUUUUUCCGGUCUGCAUAAUUACAGGGACGUGAGGGCUUUAAACUUCAUGCACUUGGCUGUGCAUACGUGUGUGCGUUAUAG-AAGGAA
(((((((.(......).).))))))(((((.............((((((....((((..(((((((........)))))))..))))..)))))).((((....)))).....-))))). ( -36.90)
>consensus
GCAGGACUCUUUUUUGUGCUCCUGCUCCUUGCUUUUUCCGGUCUGCAUAAUUACAGGGACGUGAGGGCUUUAAACUUCAUGCACUUGGCUGUGCAUGCGUGUGUGCGUUCUAAAAAAGAA
(((((((.(......).).))))))......((((((......((((((....((((..(((((((........)))))))..))))..)))))).((((....))))....)))))).. (-33.84 = -33.40 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 2

Location 20,213,707 – 20,213,819
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.10
Mean single sequence MFE -32.58
Consensus MFE -30.10
Energy contribution -30.02
Covariance contribution -0.08
Combinations/Pair 1.06
Mean z-score -1.67
Structure conservation index 0.92
SVM decision value 2.08
SVM RNA-class probability 0.987459
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20213707 112 + 22407834
GUCUGCAUAAUUACAGGGACGUGAGGGCUUUAAACUUCAUGCACUUGGCUGUGCACGCGUGUGUGCGUUCUAAAAAAGAACUCUUUCACUAUCACUUUCAGGCACAUCC--------UCG
((.((((((....((((..(((((((........)))))))..))))..)))))).))(..((((((((((.....))))).............(.....))))))..)--------... ( -33.10)
>DroSec_CAF1 54920 112 + 1
GUCUGCAUAAUUACAGGAACGUGAGGGCUUUAAACUUCAUGCACUUGGCUGUGCAUGCGUGUGUGCGUUCUAAAAAGGAACUCUUUCACUAUCACUUUCAGGCACAUCC--------UCG
((.((((((....((((..(((((((........)))))))..))))..)))))).))(..((((((((((.....))))).............(.....))))))..)--------... ( -31.10)
>DroSim_CAF1 32092 112 + 1
GUCUGCAUAAUUACAGGGACGUGAGGGCUUUAAACUUCAUGCACUUGGCUGUGCAUGCGUGUGUGCGUUCUAAAAAAGAACUCUUUCACUAUCACUUUCAGGCACAUCC--------UCG
((.((((((....((((..(((((((........)))))))..))))..)))))).))(..((((((((((.....))))).............(.....))))))..)--------... ( -33.10)
>DroEre_CAF1 10372 120 + 1
GUCUGCAUAAUUACAGGGACGUGAGGGCUUUAAACUUCAUGCACUUGGCUGUGCAUACGUGUUUGCGUUCUAAAAAAGAACUCUUUCACUAUCACUUUCAGGCACAUCCUCGCAUCCUCG
..(((........)))(((.((((((((((.(((....((((((......))))))..(((...(.(((((.....))))).)...)))......))).))))....)))))).)))... ( -32.40)
>DroYak_CAF1 8110 111 + 1
GUCUGCAUAAUUACAGGGACGUGAGGGCUUUAAACUUCAUGCACUUGGCUGUGCAUACGUGUGUGCGUUAUAG-AAGGAACUCUUUCACUAUCACUUUCAGGCACAUCC--------UCG
((.((((((....((((..(((((((........)))))))..))))..)))))).))(..(((((......(-((((....))))).......(.....))))))..)--------... ( -33.20)
>consensus
GUCUGCAUAAUUACAGGGACGUGAGGGCUUUAAACUUCAUGCACUUGGCUGUGCAUGCGUGUGUGCGUUCUAAAAAAGAACUCUUUCACUAUCACUUUCAGGCACAUCC________UCG
((.((((((....((((..(((((((........)))))))..))))..)))))).))..(((((((((((.....))))).............(.....)))))))............. (-30.10 = -30.02 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 3

Location 20,213,707 – 20,213,819
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.10
Mean single sequence MFE -31.94
Consensus MFE -28.62
Energy contribution -28.86
Covariance contribution 0.24
Combinations/Pair 1.10
Mean z-score -1.48
Structure conservation index 0.90
SVM decision value 1.16
SVM RNA-class probability 0.923664
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20213707 112 - 22407834
CGA--------GGAUGUGCCUGAAAGUGAUAGUGAAAGAGUUCUUUUUUAGAACGCACACACGCGUGCACAGCCAAGUGCAUGAAGUUUAAAGCCCUCACGUCCCUGUAAUUAUGCAGAC
...--------(((((((.......(((...(((.....(((((.....))))).))).))).(((((((......)))))))..............)))))))(((((....))))).. ( -32.30)
>DroSec_CAF1 54920 112 - 1
CGA--------GGAUGUGCCUGAAAGUGAUAGUGAAAGAGUUCCUUUUUAGAACGCACACACGCAUGCACAGCCAAGUGCAUGAAGUUUAAAGCCCUCACGUUCCUGUAAUUAUGCAGAC
.((--------((.((((((((((((.((...(....)...)).)))))))...)))))....(((((((......)))))))...........))))......(((((....))))).. ( -31.40)
>DroSim_CAF1 32092 112 - 1
CGA--------GGAUGUGCCUGAAAGUGAUAGUGAAAGAGUUCUUUUUUAGAACGCACACACGCAUGCACAGCCAAGUGCAUGAAGUUUAAAGCCCUCACGUCCCUGUAAUUAUGCAGAC
...--------(((((((.......(((...(((.....(((((.....))))).))).))).(((((((......)))))))..............)))))))(((((....))))).. ( -32.70)
>DroEre_CAF1 10372 120 - 1
CGAGGAUGCGAGGAUGUGCCUGAAAGUGAUAGUGAAAGAGUUCUUUUUUAGAACGCAAACACGUAUGCACAGCCAAGUGCAUGAAGUUUAAAGCCCUCACGUCCCUGUAAUUAUGCAGAC
...(((((.((((..(((.(((((((.((...(....)...)).)))))))..)))((((...(((((((......)))))))..)))).....)))).)))))(((((....))))).. ( -35.90)
>DroYak_CAF1 8110 111 - 1
CGA--------GGAUGUGCCUGAAAGUGAUAGUGAAAGAGUUCCUU-CUAUAACGCACACACGUAUGCACAGCCAAGUGCAUGAAGUUUAAAGCCCUCACGUCCCUGUAAUUAUGCAGAC
...--------(((((((.......(((...((...((((....))-))...)).))).....(((((((......)))))))..............)))))))(((((....))))).. ( -27.40)
>consensus
CGA________GGAUGUGCCUGAAAGUGAUAGUGAAAGAGUUCUUUUUUAGAACGCACACACGCAUGCACAGCCAAGUGCAUGAAGUUUAAAGCCCUCACGUCCCUGUAAUUAUGCAGAC
...........(((((((.......(((...(((.....(((((.....))))).))).))).(((((((......)))))))..............)))))))(((((....))))).. (-28.62 = -28.86 +   0.24)

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 12:29:51 2006