Locus 7686

Sequence ID 2L_DroMel_CAF1
Location 21,671,727 – 21,671,856
Length 129
Max. P 0.878205
window12346 window12347

overview

Window 6

Location 21,671,727 – 21,671,832
Length 105
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 83.86
Mean single sequence MFE -32.72
Consensus MFE -19.91
Energy contribution -21.41
Covariance contribution 1.50
Combinations/Pair 1.03
Mean z-score -2.58
Structure conservation index 0.61
SVM decision value 0.90
SVM RNA-class probability 0.878205
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21671727 105 + 22407834
GCUGUGCUAACGGUAAAGGAAAAUUCAGUGAUUGGGGACUUUCACGUUGCACAGUUGAUGUAUUGCUUUGUGCGCGACGGUG--UUGUUGUAGUGCGAAAGCAACAA
(((((((.(((.......((....)).((((..(....)..)))))))))))))).......((((((((..(((((((...--.)))))).)..).)))))))... ( -34.50)
>DroSec_CAF1 5710 105 + 1
GCUGUGCUAACGGUAAAGGACAAUUUUGUGAUUUGGGACUUUCACGUUGCACAAUUAAUGUAUUGCUUUGUGCGCGACGGUG--UUGUUGUAGUGCGAAAGCAACAA
..(((((.((((..((((..(.(((....)))...)..))))..))))))))).........((((((((..(((((((...--.)))))).)..).)))))))... ( -29.60)
>DroEre_CAF1 6033 99 + 1
ACUUUGCUAACGGUAAAGGAAAAUUCAGUGCUUUGGGAUUUUUACAGAGCACAA--------UUGCUUGGUGCGCGACGGUGCUUUGUUGUAGUGCGAAAGCAACAA
.((((((.....))))))..........((((((.(.(((...(((((((((..--------((((.......))))..)))))))))...))).).)))))).... ( -34.10)
>DroYak_CAF1 8307 98 + 1
GCUGUGCUAACGGUAAAGGAAAAUUCAGUGCUAUG-GAUUUUUACAGAGCACAA--------UUGCUUGGUGCGCGACGGUGCUUUGUUGUGGUGCGAAAGCAAUAA
(((((....)))))....(((((((((......))-)))))))(((((((((..--------((((.......))))..))))))))).....(((....))).... ( -32.70)
>consensus
GCUGUGCUAACGGUAAAGGAAAAUUCAGUGAUUUGGGACUUUCACAGAGCACAA________UUGCUUGGUGCGCGACGGUG__UUGUUGUAGUGCGAAAGCAACAA
..((((((....(((((((...................)))))))..)))))).........((((((((..((((((((....))))))).)..).)))))))... (-19.91 = -21.41 +   1.50)

alignment

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secondary structure

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dotplot

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Window 7

Location 21,671,763 – 21,671,856
Length 93
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 75.13
Mean single sequence MFE -22.18
Consensus MFE -14.73
Energy contribution -15.04
Covariance contribution 0.31
Combinations/Pair 1.06
Mean z-score -1.46
Structure conservation index 0.66
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21671763 93 + 22407834
GACUUUCACGUUGCACAGUUGAUGUAUUGCUUUGUGCGCGACGGUG--UUGUUGUAGUGCGAAAGCAACAAAUAUUCAAAAAGAUUCAGUUAAAU
((((.(((((..((((.((((.(((((......))))))))).)))--)...)))..(((....)))...............))...)))).... ( -21.20)
>DroSec_CAF1 5746 93 + 1
GACUUUCACGUUGCACAAUUAAUGUAUUGCUUUGUGCGCGACGGUG--UUGUUGUAGUGCGAAAGCAACAAAUAUUCAAAAGGUUUCAGUUACAU
((((((..(((((((((.....)))...((.....)))))))).((--.((((....(((....)))...))))..)).)))))).......... ( -20.00)
>DroEre_CAF1 6069 86 + 1
GAUUUUUACAGAGCACAA--------UUGCUUGGUGCGCGACGGUGCUUUGUUGUAGUGCGAAAGCAACAAAUACGCAAAGGA-UAUAGUAACAU
.(((((((((((((((..--------((((.......))))..))))))))).(((.(((....))).....)))...)))))-).......... ( -24.60)
>DroYak_CAF1 8342 75 + 1
GAUUUUUACAGAGCACAA--------UUGCUUGGUGCGCGACGGUGCUUUGUUGUGGUGCGAAAGCAAUAAAUAUCCAAAGGA------------
(((.((((((((((((..--------((((.......))))..))))))))......(((....))).)))).))).......------------ ( -22.90)
>consensus
GACUUUCACAGAGCACAA________UUGCUUGGUGCGCGACGGUG__UUGUUGUAGUGCGAAAGCAACAAAUAUUCAAAAGA_UUCAGUUACAU
............((((((.............))))))(((((((....)))))))..(((....)))............................ (-14.73 = -15.04 +   0.31)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:45 2006