Locus 1126

Sequence ID 2R_DroMel_CAF1
Location 4,509,144 – 4,509,266
Length 122
Max. P 0.969921
window1985 window1986

overview

Window 5

Location 4,509,144 – 4,509,235
Length 91
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 78.90
Mean single sequence MFE -33.37
Consensus MFE -23.85
Energy contribution -23.55
Covariance contribution -0.30
Combinations/Pair 1.58
Mean z-score -1.94
Structure conservation index 0.71
SVM decision value 1.18
SVM RNA-class probability 0.926638
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4509144 91 + 20766785
CAGUUGGCGUAAUCGUUGUUGUCGGUGCGGCACUGGGUUUCAUAGUGGUGCGCACCACGUAGUGCGAGUUCUUGUGGGUGGUGUGUGCCAG
((((.(.((((.(((.......))))))).)))))..........(((..((((((((.(...((((....))))).))))))))..))). ( -35.30)
>DroSim_CAF1 41949 91 + 1
CAGUUGGCGUAAACGUUGUUGUCGGUGCGGCACUGGGCUUCAUAGUGGUGCGCACCACGUAGUGCGAGUUCUUGUGGGUGGUGUGUGCCAG
((((.(.((((.(((....)))...)))).)))))..........(((..((((((((.(...((((....))))).))))))))..))). ( -34.30)
>DroEre_CAF1 42779 91 + 1
UAGUUGGCGUAAACGUUGUUGUCGGCGCGGCACUGGGUUUCAUAGUGGUGCGCACCACGUAGUGUGAGUUCUUGUGGGUGGUGUGUGCUAA
(((((.((((..(((....)))..)))).).))))..........(((..((((((((.((..(......)...)).))))))))..))). ( -30.30)
>DroYak_CAF1 45564 91 + 1
UAGUUGGCGUAAACGUUGUCGUAGGUGCGGCACUGGGUUUCAUAGUGGUGCGCACCACGUAGUGUGAGUUCUUGUGGGUGGUGUGUGCCAG
((((.(.((((.(((....)))...)))).)))))..........(((..((((((((.((..(......)...)).))))))))..))). ( -31.80)
>DroMoj_CAF1 56362 85 + 1
CAGUGGUUGUUAGCUU------GGCUUCUUGAUUGGGCUUUACUGUGGUGCGCACCACAAAGUGCGAGUUCUUGUGGGUGGUGUGCGCAGU
((((((.....((((.------.((.....).)..))))))))))..(((((((((((....(((((....))))).)))))))))))... ( -31.50)
>DroAna_CAF1 42204 91 + 1
CUGUUGCCACAGUUGCAUUCACCGGCGCAGUACUUGGCUUGAGAGUGGUGCGCACCACAAAGUGCGAAUUCUUGUGGGUGGUGUGUGGCUG
.........((((..((..((((((((((.(((((.......))))).))))).(((((((((....))).)))))).)))))))..)))) ( -37.00)
>consensus
CAGUUGGCGUAAACGUUGUUGUCGGUGCGGCACUGGGCUUCAUAGUGGUGCGCACCACGUAGUGCGAGUUCUUGUGGGUGGUGUGUGCCAG
....(((((((.((..........(((((.(((((.......))))).))))).(((((.((........)))))))...)).))))))). (-23.85 = -23.55 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 4,509,171 – 4,509,266
Length 95
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 76.45
Mean single sequence MFE -40.35
Consensus MFE -22.85
Energy contribution -23.27
Covariance contribution 0.42
Combinations/Pair 1.31
Mean z-score -2.33
Structure conservation index 0.57
SVM decision value 1.65
SVM RNA-class probability 0.969921
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4509171 95 + 20766785
CGGCACUGGGUUUCAUAGUGGUGCGCACCACGUAGUGCGAGUUCUUGUGGGUGGUGUGUGCCAGCGGUGGGCGGCGUGUGGUUGAGAGCGUG----CCG
((((((..(.(((((...(((..((((((((.(...((((....))))).))))))))..)))((.(....).)).......))))).))))----))) ( -41.20)
>DroVir_CAF1 53965 99 + 1
CUGCGCUGGGUUUGACUGUGGUGCGCACCACAAAGUGUGAGUGCUUGUGGGUGGUGUGCGCGGUGGUGGGGCGACGCGUAGAGCUAGGUGAGUGGCUUG
((((((...((((.((..(.(((((((((((.((((......))))....))))))))))).)..)).))))...))))))(((((......))))).. ( -46.20)
>DroSim_CAF1 41976 95 + 1
CGGCACUGGGCUUCAUAGUGGUGCGCACCACGUAGUGCGAGUUCUUGUGGGUGGUGUGUGCCAGCGGUGGGCGGCGUGUGGUUGAGAGCGUG----CCG
(((((((.((((.(((..(((..((((((((.(...((((....))))).))))))))..)))((.(....).))))).)))).)....)))----))) ( -40.60)
>DroYak_CAF1 45591 95 + 1
CGGCACUGGGUUUCAUAGUGGUGCGCACCACGUAGUGUGAGUUCUUGUGGGUGGUGUGUGCCAGUGGUGGGCGGCGUGUGGUUGAGAGCGUG----CCG
((((((.........((.(((..((((((((.((..(......)...)).))))))))..))).))((...((((.....))))...)))))----))) ( -38.30)
>DroMoj_CAF1 56383 99 + 1
CUUGAUUGGGCUUUACUGUGGUGCGCACCACAAAGUGCGAGUUCUUGUGGGUGGUGUGCGCAGUGCUGGGGCGACGCGUCGAGCUGAACGAGUGGGUUG
((((.((.(((((.((.((((((((((((((....(((((....))))).)))))))))))..(((....))).))))).))))).))))))....... ( -38.10)
>DroAna_CAF1 42231 95 + 1
CAGUACUUGGCUUGAGAGUGGUGCGCACCACAAAGUGCGAAUUCUUGUGGGUGGUGUGUGGCUGUGGUGGGCGGCGAGUGGUUGCCAGGGAA----CUG
((((.((((((....(..((.(((.(((((((..(..((.((((....))))..))..)...))))))).))).))..)....))))))..)----))) ( -37.70)
>consensus
CGGCACUGGGCUUCAUAGUGGUGCGCACCACAAAGUGCGAGUUCUUGUGGGUGGUGUGUGCCAGCGGUGGGCGGCGUGUGGUUGAGAGCGAG____CCG
(.((((...((((..((.(((((((((((((....(((((....))))).))))))))))))).))..))))...)))).).................. (-22.85 = -23.27 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:09 2006