Locus 2830

Sequence ID 3L_DroMel_CAF1
Location 8,049,673 – 8,049,897
Length 224
Max. P 0.978883
window4425 window4426 window4427

overview

Window 5

Location 8,049,673 – 8,049,793
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.50
Mean single sequence MFE -25.24
Consensus MFE -24.48
Energy contribution -24.52
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.34
Structure conservation index 0.97
SVM decision value 1.13
SVM RNA-class probability 0.920002
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8049673 120 - 23771897
CAUGCGUAAUUGAUUUUUAUGCAUUUCCCUUUCGGCAUCCGAGAGAUUGUUUAUUUAUUUAUAUGCAAAGCGUGCUUAACACGUUUUUCUCCUUACCCCUGGCUGCACUCGACUUUUGUA
.((((((((.......))))))))....(((((((...)))))))..................(((((((((((.....))))))))...((........))..)))............. ( -24.60)
>DroSec_CAF1 20689 120 - 1
CAUGCGUAAUUGAUUUUUAUGCAUUUCCCUUUCGGCAUCCGAGAGAUUGUUUAUUUAUUUAUAUGCAAAGCGUGCUUAACACGUUUUUCACCUUACCCUUGGCUGCACUCGACUUUUGUG
.((((((((.......)))))))).......((((((.(((((...((((.(((......))).))))((((((.....))))))............))))).)))...)))........ ( -25.20)
>DroSim_CAF1 20846 120 - 1
CAUGCGUAAUUGAUUUUUAUGCAUUUCCCUUUCGGCAUCCGAGAGAUUGUUUAUUUAUUUAUAUGCAAAGCGUGCUUAACACGUUUUUCUCCUUACCCUUGGCUGCACUCGACUUUUGUG
.((((((((.......)))))))).......((((((.(((((...((((.(((......))).))))((((((.....))))))............))))).)))...)))........ ( -25.20)
>DroEre_CAF1 20620 120 - 1
CAUGCGUAAUUGAUUUUUAUGCAUUUUCCUAUCGGCAUCCGAGAGAUUGUUUAUUUAUUUAUAUGCAAAGCGUGCUUAACACGUUUUUCUCCUUACCCUUGGUUGCACUCGACUUUUGUG
.((((((((.......)))))))).......((((((.(((((...((((.(((......))).))))((((((.....))))))............))))).)))...)))........ ( -25.40)
>DroYak_CAF1 21272 120 - 1
CAUGCGUAAUUGAUUUUUAUGCAUUUCCCCUGCGGCAUCCGAGAGAUUGUUUAUUUAUUUGUAUGCAAAGCGUGCUUAACACGUUUUUCUCCUUACCCUUGGUUGCACUCGACUUGUGUG
.((((((((.......))))))))...((..(.((.....((((((((((.(((......))).))))((((((.....))))))))))))....)))..))..((((.......)))). ( -25.80)
>consensus
CAUGCGUAAUUGAUUUUUAUGCAUUUCCCUUUCGGCAUCCGAGAGAUUGUUUAUUUAUUUAUAUGCAAAGCGUGCUUAACACGUUUUUCUCCUUACCCUUGGCUGCACUCGACUUUUGUG
.((((((((.......))))))))..........(((.(((((...((((.(((......))).))))((((((.....))))))............))))).))).............. (-24.48 = -24.52 +   0.04)

alignment

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secondary structure

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dotplot

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Window 6

Location 8,049,713 – 8,049,828
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.53
Mean single sequence MFE -24.12
Consensus MFE -22.12
Energy contribution -22.20
Covariance contribution 0.08
Combinations/Pair 1.06
Mean z-score -1.62
Structure conservation index 0.92
SVM decision value 1.82
SVM RNA-class probability 0.978883
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8049713 115 - 23771897
--UGGCUUAUCGUUA---AGUUUUUCUCAAUUGGAUUUUUCAUGCGUAAUUGAUUUUUAUGCAUUUCCCUUUCGGCAUCCGAGAGAUUGUUUAUUUAUUUAUAUGCAAAGCGUGCUUAAC
--.........((((---(((...........(((......((((((((.......)))))))).)))(((((((...))))))).((((.(((......))).)))).....))))))) ( -22.90)
>DroSec_CAF1 20729 118 - 1
--UGGCUUAUCGUUAUUUUAUUUUUCUCAAUUGGAAUUUUCAUGCGUAAUUGAUUUUUAUGCAUUUCCCUUUCGGCAUCCGAGAGAUUGUUUAUUUAUUUAUAUGCAAAGCGUGCUUAAC
--.(((....((((..................((((.....((((((((.......))))))))))))(((((((...))))))).((((.(((......))).)))))))).))).... ( -23.60)
>DroSim_CAF1 20886 115 - 1
--UGGCUUAUCGUUG---AAUUUUUCUCAAUUGGAAUUUUCAUGCGUAAUUGAUUUUUAUGCAUUUCCCUUUCGGCAUCCGAGAGAUUGUUUAUUUAUUUAUAUGCAAAGCGUGCUUAAC
--.(((....(((((---((..((((......))))..)))((((((((.......))))))))....(((((((...))))))).((((.(((......))).)))))))).))).... ( -25.40)
>DroEre_CAF1 20660 114 - 1
---GGCUUAUCGUUG---AAUUUUUCUCAAUUGGAAUUUUCAUGCGUAAUUGAUUUUUAUGCAUUUUCCUAUCGGCAUCCGAGAGAUUGUUUAUUUAUUUAUAUGCAAAGCGUGCUUAAC
---(((....((((.---......((((....((((.....((((((((.......)))))))).))))..((((...))))))))((((.(((......))).)))))))).))).... ( -24.20)
>DroYak_CAF1 21312 117 - 1
UUUGGCUUAUCGUUG---AGUUUUUCUCAAUUGGAAUUUUCAUGCGUAAUUGAUUUUUAUGCAUUUCCCCUGCGGCAUCCGAGAGAUUGUUUAUUUAUUUGUAUGCAAAGCGUGCUUAAC
...(((.....((((---((.....)))))).((((.....((((((((.......))))))))))))...((.((((.((((((((.....)))).)))).))))...))..))).... ( -24.50)
>consensus
__UGGCUUAUCGUUG___AAUUUUUCUCAAUUGGAAUUUUCAUGCGUAAUUGAUUUUUAUGCAUUUCCCUUUCGGCAUCCGAGAGAUUGUUUAUUUAUUUAUAUGCAAAGCGUGCUUAAC
...(((....((((..........((((....((((.....((((((((.......))))))))))))...((((...))))))))((((.(((......))).)))))))).))).... (-22.12 = -22.20 +   0.08)

alignment

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secondary structure

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dotplot

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Window 7

Location 8,049,793 – 8,049,897
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.16
Mean single sequence MFE -26.01
Consensus MFE -6.28
Energy contribution -6.69
Covariance contribution 0.41
Combinations/Pair 1.06
Mean z-score -1.84
Structure conservation index 0.24
SVM decision value 0.52
SVM RNA-class probability 0.768667
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8049793 104 + 23771897
AAAAAUCCAAUUGAGAAAAACU---UAACGAUAAGCCA---------UGGCGCAUGCGUGGCCUGAAGCUGAAGUCGGAAAAAAAAGUCG-GGCGUGGUAUGU---GUCUUGGUAAAAGU
....(((...(((((.....))---))).)))..((((---------.(((((((((...((((((..(((....))).........)))-)))...))))))---))).))))...... ( -29.80)
>DroSec_CAF1 20809 104 + 1
AAAAUUCCAAUUGAGAAAAAUAAAAUAACGAUAAGCCA---------UGGCGCAUGCGUGGCCUGAAGGUGAAGUCCGAAAAAA---UUG-GGCGUGGUCUGU---GUCUUGGUAAAAGU
..................................((((---------.((((((.((.(.(((....))).).((((((.....---)))-)))...)).)))---))).))))...... ( -24.60)
>DroSim_CAF1 20966 101 + 1
AAAAUUCCAAUUGAGAAAAAUU---CAACGAUAAGCCA---------UGGCGCAUGCGUGGCCUGAAGCUGAAGUCGGAAAAAA---UUG-GGCGUGGUCUGC---GUCUUGGUAAAAGU
..........(((((.....))---)))......((((---------.((((((.((...(((..(..(((....)))......---)..-)))...)).)))---))).))))...... ( -24.80)
>DroEre_CAF1 20740 87 + 1
AAAAUUCCAAUUGAGAAAAAUU---CAACGAUAAGCC--------------------------CGAAGCUGAAGUCUUGAAGAA---UCG-GGCGUGGUAUCUCACAUUUUGGGAAAAGG
....(((((((((((.....))---))).((((.(((--------------------------(((..((..........))..---)))-)))....)))).......))))))..... ( -21.50)
>DroYak_CAF1 21392 113 + 1
AAAAUUCCAAUUGAGAAAAACU---CAACGAUAAGCCAAACAAAUCAAGGCGCAUGCGUGGCCUCAAGCUGAAGUCUUGAAAAC---UUGGGGCGUGGUAUCUCAU-UUUUGGGAAAAGG
....((((((.(((((...((.---..(((....(((...........))).....))).((((((((...............)---)))))))))....))))).-..))))))..... ( -29.36)
>consensus
AAAAUUCCAAUUGAGAAAAAUU___CAACGAUAAGCCA_________UGGCGCAUGCGUGGCCUGAAGCUGAAGUCGGAAAAAA___UUG_GGCGUGGUAUGU___GUCUUGGUAAAAGU
.........((..(((............((....(((...........(((.((....))))).......(....)...............))).))..........)))..))...... ( -6.28 =  -6.69 +   0.41)

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 10:42:53 2006