Locus 264

Sequence ID 2L_DroMel_CAF1
Location 748,637 – 748,763
Length 126
Max. P 0.999883
window421 window422 window423

overview

Window 1

Location 748,637 – 748,742
Length 105
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 91.67
Mean single sequence MFE -23.28
Consensus MFE -18.28
Energy contribution -18.96
Covariance contribution 0.68
Combinations/Pair 1.10
Mean z-score -1.50
Structure conservation index 0.79
SVM decision value 0.12
SVM RNA-class probability 0.595262
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 748637 105 + 22407834
AGAAGGCAAGCAUUACUUCCUAUUUGUUAUGCCUUCUCUCUUCAGCAAAUAUUUGUUAUUAUAAUACGGUGUAGGUGUAGUCCAAUCUUCAUGCCGUAUUCCAAG
((((((((((((............)))).))))))))......(((((....))))).....((((((((((((((........))))..))))))))))..... ( -25.50)
>DroSec_CAF1 10163 102 + 1
AGAGGGCAAGUAUUACUUCCUAUUUGAUAUGCCUUCUCUCUUCAGCAAAUAUUUGUUAUUAUAAUACGGUGUAGGUG---UCCAAUCUUCAAGCCGUAUUUCAAG
((((((((..(((((.........)))))))))))))......(((((....))))).....((((((((..((((.---....))))....))))))))..... ( -23.30)
>DroSim_CAF1 13597 102 + 1
AGAAGGCAAGUAUUACUUCCUAUUUGAUAUGCCUUCUCUCUUCAGCAAAUAUUUGUUAUUAUAAUACGGUGUAGGUG---UCCAAUCUUCAAGCCGUAUUCCAAG
((((((((..(((((.........)))))))))))))......(((((....))))).....((((((((..((((.---....))))....))))))))..... ( -23.60)
>DroEre_CAF1 10494 101 + 1
GCAAGGCAAGUAUUACGUCCUACUUGAUAUGCCUUCGCUC-UUGGCAAAUAUUUGUUAUUAUAAUACGGUGCAGGUG---UCCAGUCUUCAAGCCGUAUUCCAAG
((((((((..(((((.(.....).))))))))))).)).(-((((..((((.....))))..((((((((..(((..---......)))...))))))))))))) ( -24.00)
>DroYak_CAF1 12878 102 + 1
AGACGGCAAGUAUUACUUCCUAUUUGAUAUGCCUUCUCUCCUCAGCAAAUAUUUGUUAUUAUAAUACGGUGCAGGUG---UCCAGUCCUCAAGCCGUAUUCCAAG
(((.((((..(((((.........))))))))).)))......(((((....))))).....((((((((..(((..---......)))...))))))))..... ( -20.00)
>consensus
AGAAGGCAAGUAUUACUUCCUAUUUGAUAUGCCUUCUCUCUUCAGCAAAUAUUUGUUAUUAUAAUACGGUGUAGGUG___UCCAAUCUUCAAGCCGUAUUCCAAG
((((((((..(((((.........)))))))))))))......(((((....))))).....((((((((..((((........))))....))))))))..... (-18.28 = -18.96 +   0.68)

alignment

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secondary structure

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dotplot

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Window 2

Location 748,666 – 748,763
Length 97
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 93.38
Mean single sequence MFE -24.44
Consensus MFE -21.36
Energy contribution -21.36
Covariance contribution -0.00
Combinations/Pair 1.08
Mean z-score -2.09
Structure conservation index 0.87
SVM decision value 2.57
SVM RNA-class probability 0.995335
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 748666 97 + 22407834
UGCCUUCUCUCUUCAGCAAAUAUUUGUUAUUAUAAUACGGUGUAGGUGUAGUCCAAUCUUCAUGCCGUAUUCCAAGCACCCGCCUGAGAGAAGUUAC
...((((((((...(((((....))))).....((((((((((((((........))))..))))))))))..............)))))))).... ( -24.80)
>DroSec_CAF1 10192 94 + 1
UGCCUUCUCUCUUCAGCAAAUAUUUGUUAUUAUAAUACGGUGUAGGUG---UCCAAUCUUCAAGCCGUAUUUCAAGCACCCGCCUGAGAGAAGUUAU
...((((((((...(((((....))))).....((((((((..((((.---....))))....))))))))..............)))))))).... ( -24.90)
>DroSim_CAF1 13626 94 + 1
UGCCUUCUCUCUUCAGCAAAUAUUUGUUAUUAUAAUACGGUGUAGGUG---UCCAAUCUUCAAGCCGUAUUCCAAGCACCCGCCUGAGAGAAGUUAC
...((((((((...(((((....))))).....((((((((..((((.---....))))....))))))))..............)))))))).... ( -24.90)
>DroEre_CAF1 10523 93 + 1
UGCCUUCGCUC-UUGGCAAAUAUUUGUUAUUAUAAUACGGUGCAGGUG---UCCAGUCUUCAAGCCGUAUUCCAAGCACCCGCCUGAGAGAAGUUAC
...((((.(((-..(((.((((.....))))..((((((((..(((..---......)))...))))))))..........))).))).)))).... ( -22.60)
>DroYak_CAF1 12907 94 + 1
UGCCUUCUCUCCUCAGCAAAUAUUUGUUAUUAUAAUACGGUGCAGGUG---UCCAGUCCUCAAGCCGUAUUCCAAGCACCCGCCUGAGAGAAGUUUC
...((((((((...(((((....))))).....((((((((..(((..---......)))...))))))))..............)))))))).... ( -25.00)
>consensus
UGCCUUCUCUCUUCAGCAAAUAUUUGUUAUUAUAAUACGGUGUAGGUG___UCCAAUCUUCAAGCCGUAUUCCAAGCACCCGCCUGAGAGAAGUUAC
...((((((((...(((((....))))).....((((((((..((((........))))....))))))))..............)))))))).... (-21.36 = -21.36 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 3

Location 748,666 – 748,763
Length 97
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 93.38
Mean single sequence MFE -27.82
Consensus MFE -26.66
Energy contribution -26.54
Covariance contribution -0.12
Combinations/Pair 1.07
Mean z-score -2.33
Structure conservation index 0.96
SVM decision value 4.37
SVM RNA-class probability 0.999883
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 748666 97 - 22407834
GUAACUUCUCUCAGGCGGGUGCUUGGAAUACGGCAUGAAGAUUGGACUACACCUACACCGUAUUAUAAUAACAAAUAUUUGCUGAAGAGAGAAGGCA
....((((((((.((((((((.(((.(((((((..((.((..((.....)).)).))))))))).......))).))))))))...))))))))... ( -28.60)
>DroSec_CAF1 10192 94 - 1
AUAACUUCUCUCAGGCGGGUGCUUGAAAUACGGCUUGAAGAUUGGA---CACCUACACCGUAUUAUAAUAACAAAUAUUUGCUGAAGAGAGAAGGCA
....((((((((.((((((((.(((.(((((((..((.((......---...)).))))))))).......))).))))))))...))))))))... ( -25.60)
>DroSim_CAF1 13626 94 - 1
GUAACUUCUCUCAGGCGGGUGCUUGGAAUACGGCUUGAAGAUUGGA---CACCUACACCGUAUUAUAAUAACAAAUAUUUGCUGAAGAGAGAAGGCA
....((((((((.((((((((.(((.(((((((..((.((......---...)).))))))))).......))).))))))))...))))))))... ( -27.80)
>DroEre_CAF1 10523 93 - 1
GUAACUUCUCUCAGGCGGGUGCUUGGAAUACGGCUUGAAGACUGGA---CACCUGCACCGUAUUAUAAUAACAAAUAUUUGCCAA-GAGCGAAGGCA
....((((.(((.(((((((((..((....((((.....).)))..---..)).)))))(((((.........))))).))))..-))).))))... ( -24.80)
>DroYak_CAF1 12907 94 - 1
GAAACUUCUCUCAGGCGGGUGCUUGGAAUACGGCUUGAGGACUGGA---CACCUGCACCGUAUUAUAAUAACAAAUAUUUGCUGAGGAGAGAAGGCA
....((((((((.((((((((.(((.(((((((..(((((......---..))).))))))))).......))).))))))))...))))))))... ( -32.30)
>consensus
GUAACUUCUCUCAGGCGGGUGCUUGGAAUACGGCUUGAAGAUUGGA___CACCUACACCGUAUUAUAAUAACAAAUAUUUGCUGAAGAGAGAAGGCA
....((((((((.((((((((.(((.(((((((..((.((............)).))))))))).......))).))))))))...))))))))... (-26.66 = -26.54 +  -0.12)

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 09:31:33 2006