Locus 7526

Sequence ID 2L_DroMel_CAF1
Location 20,892,161 – 20,892,258
Length 97
Max. P 0.832749
window12096 window12097

overview

Window 6

Location 20,892,161 – 20,892,258
Length 97
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 80.28
Mean single sequence MFE -35.68
Consensus MFE -25.27
Energy contribution -26.61
Covariance contribution 1.34
Combinations/Pair 1.18
Mean z-score -1.78
Structure conservation index 0.71
SVM decision value 0.72
SVM RNA-class probability 0.832749
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20892161 97 + 22407834
CUGCGUUUGCUUGAUUGGCUGUCCGAUAUAAGGUGUCGGACUUUUUACCUGGCCAGCAGAGCCAGAGCAGGCGGGGAAACAGGUGCCGUCAAGCGGA
.....((((((((((.(((.(((((((((...))))))))).....(((((.((......(((......)))..))...)))))))))))))))))) ( -41.20)
>DroSec_CAF1 75599 97 + 1
CUGCGUUUGCUUGAUUGGCUGUCCGAUAUAAGGUGUCGGACUCUUUACCUGGCCAGCAGAGCCGGAGCAGGCGGGCAAACAGGUGCCGUCAAGCGGA
.....((((((((((.(((.(((((((((...))))))))).....(((((....((...(((......)))..))...)))))))))))))))))) ( -42.90)
>DroSim_CAF1 79341 97 + 1
CUGCGUUUGCUUGAUUGGCUGUCCGAUAUAAGGUGUCGGACUCUUUACCUGGCCAGCAGAGCCGGAGCAGGCGGGCAAACAGGUGCCGUCAAGCGGA
.....((((((((((.(((.(((((((((...))))))))).....(((((....((...(((......)))..))...)))))))))))))))))) ( -42.90)
>DroEre_CAF1 77090 92 + 1
CUGCGUUUGCUUGAUUGGCUGUCCGAUAUAAGGUGUCGGUCUCUUUACCUGGCCAGCAGAGCAGU-----GCGGGGAAACAGGUGCCGUGGAGCGGA
.....(((((((.((.(((.(.(((((((...))))))).).....(((((.((.(((......)-----))..))...)))))))))).))))))) ( -32.80)
>DroYak_CAF1 68143 92 + 1
CUGCGUUUGCUUGAUUGGCUGUCCGAUAUAAGGUGUCGGACUUUUUACCUGG-CAGCAGAGCAGUA----GCGGGGAAACAGGUGCCGUCAAGCGGA
.....((((((((((.(((.(((((((((...))))))))).....(((((.-...(...((....----))...)...)))))))))))))))))) ( -36.70)
>DroAna_CAF1 63952 75 + 1
CUGCGUUUGCUUGAUUGGUUGUCCGAUAGAAGGUGUCGU----------------------CGGUUGGAGGGAGGCAGGCAGUCACUGACAGUUGGA
(((((.(((((((.....((.((((((.((........)----------------------).)))))).))...)))))))....)).)))..... ( -17.60)
>consensus
CUGCGUUUGCUUGAUUGGCUGUCCGAUAUAAGGUGUCGGACUCUUUACCUGGCCAGCAGAGCCGGAGCAGGCGGGCAAACAGGUGCCGUCAAGCGGA
.....((((((((((.(((.((((((((.....)))))))).....(((((.........((........)).......)))))))))))))))))) (-25.27 = -26.61 +   1.34)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,892,161 – 20,892,258
Length 97
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 80.28
Mean single sequence MFE -27.47
Consensus MFE -15.83
Energy contribution -18.39
Covariance contribution 2.56
Combinations/Pair 1.05
Mean z-score -1.77
Structure conservation index 0.58
SVM decision value 0.05
SVM RNA-class probability 0.560742
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20892161 97 - 22407834
UCCGCUUGACGGCACCUGUUUCCCCGCCUGCUCUGGCUCUGCUGGCCAGGUAAAAAGUCCGACACCUUAUAUCGGACAGCCAAUCAAGCAAACGCAG
...((((((.((((((((....((.((..((....))...)).)).))))).....((((((.........)))))).)))..))))))........ ( -33.30)
>DroSec_CAF1 75599 97 - 1
UCCGCUUGACGGCACCUGUUUGCCCGCCUGCUCCGGCUCUGCUGGCCAGGUAAAGAGUCCGACACCUUAUAUCGGACAGCCAAUCAAGCAAACGCAG
...((((((.((((((((...(((.((..((....))...)).)))))))).....((((((.........)))))).)))..))))))........ ( -36.80)
>DroSim_CAF1 79341 97 - 1
UCCGCUUGACGGCACCUGUUUGCCCGCCUGCUCCGGCUCUGCUGGCCAGGUAAAGAGUCCGACACCUUAUAUCGGACAGCCAAUCAAGCAAACGCAG
...((((((.((((((((...(((.((..((....))...)).)))))))).....((((((.........)))))).)))..))))))........ ( -36.80)
>DroEre_CAF1 77090 92 - 1
UCCGCUCCACGGCACCUGUUUCCCCGC-----ACUGCUCUGCUGGCCAGGUAAAGAGACCGACACCUUAUAUCGGACAGCCAAUCAAGCAAACGCAG
...(((....((((((((....((.((-----(......))).)).))))).......((((.........))))...))).....)))........ ( -21.40)
>DroYak_CAF1 68143 92 - 1
UCCGCUUGACGGCACCUGUUUCCCCGC----UACUGCUCUGCUG-CCAGGUAAAAAGUCCGACACCUUAUAUCGGACAGCCAAUCAAGCAAACGCAG
...((((((.((((((((.......((----....)).......-.))))).....((((((.........)))))).)))..))))))........ ( -28.66)
>DroAna_CAF1 63952 75 - 1
UCCAACUGUCAGUGACUGCCUGCCUCCCUCCAACCG----------------------ACGACACCUUCUAUCGGACAACCAAUCAAGCAAACGCAG
...........(((..(((.((...........(((----------------------(.((.....))..)))).........)).)))..))).. (  -7.85)
>consensus
UCCGCUUGACGGCACCUGUUUCCCCGCCUGCUACGGCUCUGCUGGCCAGGUAAAGAGUCCGACACCUUAUAUCGGACAGCCAAUCAAGCAAACGCAG
...((((((.((((((((.......((........)).........))))).....((((((.........)))))).)))..))))))........ (-15.83 = -18.39 +   2.56)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:59 2006