Locus 1486

Sequence ID 2L_DroMel_CAF1
Location 3,980,733 – 3,980,831
Length 98
Max. P 0.975687
window2414 window2415

overview

Window 4

Location 3,980,733 – 3,980,831
Length 98
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 89.56
Mean single sequence MFE -32.27
Consensus MFE -27.74
Energy contribution -28.58
Covariance contribution 0.84
Combinations/Pair 1.19
Mean z-score -2.67
Structure conservation index 0.86
SVM decision value 1.75
SVM RNA-class probability 0.975687
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3980733 98 + 22407834
UCCGUCCGU-UGGGUAACAAUUCUCUGCAGGUGGCAGGAAAAAACUGGGAAAAUGUCCCACGAGAGAUGGCCACUCAAAGAUACCCUGGAAAUUAGAAA
....((((.-.(((((.......(((...((((((..........(((((.....)))))(....)...))))))...))))))))))))......... ( -27.31)
>DroSec_CAF1 113823 98 + 1
UCCGUCCGU-UGGGUAACAAUUCUCUGCAGGUGGCAGGGAAACACUGGGAAAAUGUCCCAGGAGAGAUGGCCACUCAGAGAUACCCUGGAAAUUAGAAA
....((((.-.(((((.....((((((..((((((..(....).((((((.....))))))........)))))))))))))))))))))......... ( -38.60)
>DroSim_CAF1 118341 98 + 1
UCCGUCCGU-UGGGUAACAAUUCUCUGCAGGUGGCAGGGAAACACUGGGAAAAUGUCCCAGGAGAGAUGGCCACUCAGAGAUACCCUGGAAAUAAGAAA
....((((.-.(((((.....((((((..((((((..(....).((((((.....))))))........)))))))))))))))))))))......... ( -38.60)
>DroEre_CAF1 119030 98 + 1
UCCGUCCGU-UGGGUAGCAAUUCUCUGCUGGUGGCAGGGAAAAACUGGGAAAAUGUCCCCGGAGAGAUGGCCACUCAGAGAUACCCUGGAAAUUAGAAA
....((((.-.(((((.....((((((..((((((.........(((((........))))).......)))))))))))))))))))))......... ( -33.39)
>DroYak_CAF1 122371 98 + 1
UCCGUCCGU-UGGGUAGAAAUUCUCUGCAGGUGGCAGGGAAAAACUGGGAAAAUGUCCCAGGAGAGAUGGCCACUUGGAGAUACCCUGGAAAUUAGAAA
....((((.-.(((((.......(((.((((((((.........((((((.....))))))........)))))))).))))))))))))......... ( -36.64)
>DroAna_CAF1 135112 98 + 1
UCCGGCCGAAUGGAAAACAAAUCUGUGCAGUUGGCAGGCUAA-AUGGUGAAAAGGUCCUCGGAGAGAUGGCCACUUAGAGAUACCCUGAAAAUUAGAAG
.((.(((((...(...(((....))).)..))))).))((((-..........((((.((.....)).))))..((((.......))))...))))... ( -19.10)
>consensus
UCCGUCCGU_UGGGUAACAAUUCUCUGCAGGUGGCAGGGAAAAACUGGGAAAAUGUCCCAGGAGAGAUGGCCACUCAGAGAUACCCUGGAAAUUAGAAA
....((((...(((((.....((((((..((((((.........((((((.....))))))........)))))))))))))))))))))......... (-27.74 = -28.58 +   0.84)

alignment

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secondary structure

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dotplot

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Window 5

Location 3,980,733 – 3,980,831
Length 98
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 89.56
Mean single sequence MFE -28.00
Consensus MFE -22.92
Energy contribution -24.28
Covariance contribution 1.36
Combinations/Pair 1.14
Mean z-score -2.27
Structure conservation index 0.82
SVM decision value 0.50
SVM RNA-class probability 0.761017
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3980733 98 - 22407834
UUUCUAAUUUCCAGGGUAUCUUUGAGUGGCCAUCUCUCGUGGGACAUUUUCCCAGUUUUUUCCUGCCACCUGCAGAGAAUUGUUACCCA-ACGGACGGA
.........(((.(((((((((((.(((((.........(((((.....)))))..........)))))...)))))).....))))).-..))).... ( -27.51)
>DroSec_CAF1 113823 98 - 1
UUUCUAAUUUCCAGGGUAUCUCUGAGUGGCCAUCUCUCCUGGGACAUUUUCCCAGUGUUUCCCUGCCACCUGCAGAGAAUUGUUACCCA-ACGGACGGA
.........(((.(((((((((((.(((((.......(((((((.....)))))).).......)))))...)))))).....))))).-..))).... ( -33.94)
>DroSim_CAF1 118341 98 - 1
UUUCUUAUUUCCAGGGUAUCUCUGAGUGGCCAUCUCUCCUGGGACAUUUUCCCAGUGUUUCCCUGCCACCUGCAGAGAAUUGUUACCCA-ACGGACGGA
.........(((.(((((((((((.(((((.......(((((((.....)))))).).......)))))...)))))).....))))).-..))).... ( -33.94)
>DroEre_CAF1 119030 98 - 1
UUUCUAAUUUCCAGGGUAUCUCUGAGUGGCCAUCUCUCCGGGGACAUUUUCCCAGUUUUUCCCUGCCACCAGCAGAGAAUUGCUACCCA-ACGGACGGA
.........(((.(((((((((((.(((((..........((((.....))))...........)))))...)))))).....))))).-..))).... ( -29.70)
>DroYak_CAF1 122371 98 - 1
UUUCUAAUUUCCAGGGUAUCUCCAAGUGGCCAUCUCUCCUGGGACAUUUUCCCAGUUUUUCCCUGCCACCUGCAGAGAAUUUCUACCCA-ACGGACGGA
.........(((.(((((((((((.(((((........((((((.....)))))).........))))).))..)))).....))))).-..))).... ( -28.63)
>DroAna_CAF1 135112 98 - 1
CUUCUAAUUUUCAGGGUAUCUCUAAGUGGCCAUCUCUCCGAGGACCUUUUCACCAU-UUAGCCUGCCAACUGCACAGAUUUGUUUUCCAUUCGGCCGGA
..............((((...((((((((.......((....))........))))-))))..))))..(.((...((..((.....)).)).)).).. ( -14.26)
>consensus
UUUCUAAUUUCCAGGGUAUCUCUGAGUGGCCAUCUCUCCUGGGACAUUUUCCCAGUUUUUCCCUGCCACCUGCAGAGAAUUGUUACCCA_ACGGACGGA
.............(((((((((((.(((((........((((((.....)))))).........)))))...)))))).....)))))........... (-22.92 = -24.28 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:49 2006