Locus 6696

Sequence ID 3L_DroMel_CAF1
Location 17,852,794 – 17,852,918
Length 124
Max. P 0.998759
window10895 window10896 window10897

overview

Window 5

Location 17,852,794 – 17,852,889
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 91.16
Mean single sequence MFE -20.32
Consensus MFE -17.72
Energy contribution -17.60
Covariance contribution -0.12
Combinations/Pair 1.12
Mean z-score -1.67
Structure conservation index 0.87
SVM decision value 1.38
SVM RNA-class probability 0.947870
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17852794 95 + 23771897
GUUUUGCUUUUGCACGAUUAUUUCUGUUGCUGUUUUAUAGCAGUAAGCUAUAACUUUUACUACUAUUUUUCGCGCACGCUUCGUGACGUCACAGU
(((.(((....))).)))..........(((((.(((((((.....)))))))..................(((((((...)))).))).))))) ( -18.00)
>DroSec_CAF1 18381 95 + 1
GUUUUGCUUUUGCGCGAUUAUUUCUGUUGCUGUAUUAUAGCAGUAAGCUAUAACUUUUACUACUAUUUUACGCGCACGCUUCGUGACGUCACAGU
.....((...(((((((.....)).......(((..((((.((((((........)))))).))))..)))))))).))...(((....)))... ( -21.60)
>DroSim_CAF1 22427 95 + 1
GUUUUGCUUUUGCACGAUUAUUUCUGUUGCUGUUUUAUAGCAGUAAGCUAUAAUUUUUACUACUAUUUUUCGCGCACGCUUCGUGACGUCACAGU
(((.(((....))).)))..........(((((.(((((((.....)))))))..................(((((((...)))).))).))))) ( -18.10)
>DroEre_CAF1 19901 95 + 1
GUUUUGCUUUUGCACAACUAUUUCUGUUGCUGUUUUAUAGCAGUAAGCUAUAACUUUUACUACUAUUUUUCGCGCACGCUCCGUGACGUCACAGU
(((.(((....))).)))..........(((((.(((((((.....)))))))..................(((((((...)))).))).))))) ( -20.00)
>DroYak_CAF1 36354 86 + 1
GCUUUGCUUUUGCAAA---------GUUGCUGUUUUAUAGCAGUAAGCUAUAACUUUUAGUACUAUUUUGCGCGCACGCUUAGUGACGUCACAGU
(((((((....)))))---------)).(((((.(((((((.....)))))))......((((((....(((....))).)))).))...))))) ( -23.90)
>consensus
GUUUUGCUUUUGCACGAUUAUUUCUGUUGCUGUUUUAUAGCAGUAAGCUAUAACUUUUACUACUAUUUUUCGCGCACGCUUCGUGACGUCACAGU
(((.(((....))).)))..........(((((.(((((((.....)))))))..................((((((.....))).))).))))) (-17.72 = -17.60 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 6

Location 17,852,794 – 17,852,889
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 91.16
Mean single sequence MFE -24.66
Consensus MFE -19.74
Energy contribution -20.14
Covariance contribution 0.40
Combinations/Pair 1.09
Mean z-score -3.79
Structure conservation index 0.80
SVM decision value 3.21
SVM RNA-class probability 0.998759
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17852794 95 - 23771897
ACUGUGACGUCACGAAGCGUGCGCGAAAAAUAGUAGUAAAAGUUAUAGCUUACUGCUAUAAAACAGCAACAGAAAUAAUCGUGCAAAAGCAAAAC
..((((....))))..((.(((((((...(((((((((..(((....))))))))))))...........(....)..)))))))...))..... ( -24.80)
>DroSec_CAF1 18381 95 - 1
ACUGUGACGUCACGAAGCGUGCGCGUAAAAUAGUAGUAAAAGUUAUAGCUUACUGCUAUAAUACAGCAACAGAAAUAAUCGCGCAAAAGCAAAAC
..((((....))))..((.((((((((..(((((((((..(((....))))))))))))..))).......((.....)))))))...))..... ( -26.50)
>DroSim_CAF1 22427 95 - 1
ACUGUGACGUCACGAAGCGUGCGCGAAAAAUAGUAGUAAAAAUUAUAGCUUACUGCUAUAAAACAGCAACAGAAAUAAUCGUGCAAAAGCAAAAC
..((((....))))..((.(((((((...((((((((((..........))))))))))...........(....)..)))))))...))..... ( -23.90)
>DroEre_CAF1 19901 95 - 1
ACUGUGACGUCACGGAGCGUGCGCGAAAAAUAGUAGUAAAAGUUAUAGCUUACUGCUAUAAAACAGCAACAGAAAUAGUUGUGCAAAAGCAAAAC
.(((((....))))).((.(((.......(((((((((..(((....))))))))))))......((((((....).))))))))...))..... ( -26.50)
>DroYak_CAF1 36354 86 - 1
ACUGUGACGUCACUAAGCGUGCGCGCAAAAUAGUACUAAAAGUUAUAGCUUACUGCUAUAAAACAGCAAC---------UUUGCAAAAGCAAAGC
.((((...((.((((.(((....)))....))))))......(((((((.....))))))).))))...(---------(((((....)))))). ( -21.60)
>consensus
ACUGUGACGUCACGAAGCGUGCGCGAAAAAUAGUAGUAAAAGUUAUAGCUUACUGCUAUAAAACAGCAACAGAAAUAAUCGUGCAAAAGCAAAAC
...(((....)))...((.(((((((......((.((.....(((((((.....)))))))....)).))........)))))))...))..... (-19.74 = -20.14 +   0.40)

alignment

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secondary structure

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dotplot

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Window 7

Location 17,852,816 – 17,852,918
Length 102
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 93.39
Mean single sequence MFE -27.12
Consensus MFE -21.20
Energy contribution -22.64
Covariance contribution 1.44
Combinations/Pair 1.04
Mean z-score -1.55
Structure conservation index 0.78
SVM decision value 0.05
SVM RNA-class probability 0.560453
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17852816 102 + 23771897
UCUGUUGCUGUUUUAUAGCAGUAAGCUAUAACUUUUACUACUAUUUUUCGCGCACGCUUCGUGACGUCACAGUCGUCGGAGUCGGCGAAAACGUUGUCCACU
....((((((((....))))))))....................(((((((.(..((((((((((......)))).)))))).))))))))........... ( -26.30)
>DroSec_CAF1 18403 97 + 1
UCUGUUGCUGUAUUAUAGCAGUAAGCUAUAACUUUUACUACUAUUUUACGCGCACGCUUCGUGACGUCACAGUCGUCGGAGUCG----AAUCGUUGU-CACU
.....(((((((..((((.((((((........)))))).))))..)))).)))(((((((((((......)))).))))).))----.........-.... ( -25.60)
>DroSim_CAF1 22449 101 + 1
UCUGUUGCUGUUUUAUAGCAGUAAGCUAUAAUUUUUACUACUAUUUUUCGCGCACGCUUCGUGACGUCACAGUCGUCGGAGUCGGCGAAAACGUUGU-CACU
....((((((((....))))))))....................(((((((.(..((((((((((......)))).)))))).))))))))......-.... ( -26.30)
>DroEre_CAF1 19923 101 + 1
UCUGUUGCUGUUUUAUAGCAGUAAGCUAUAACUUUUACUACUAUUUUUCGCGCACGCUCCGUGACGUCACAGUCGUCGGAGUAGGCGAAAACGUUGU-CACU
....((((((((....))))))))....................(((((((.(..((((((((((......)))).)))))).))))))))......-.... ( -29.20)
>DroYak_CAF1 36370 98 + 1
---GUUGCUGUUUUAUAGCAGUAAGCUAUAACUUUUAGUACUAUUUUGCGCGCACGCUUAGUGACGUCACAGUCGUCGGAGUCGGCGAAAACGUUGU-CACU
---..(((((..(((((((.....)))))))....))))).......(((....)))..(((((((......((((((....))))))......)))-)))) ( -28.20)
>consensus
UCUGUUGCUGUUUUAUAGCAGUAAGCUAUAACUUUUACUACUAUUUUUCGCGCACGCUUCGUGACGUCACAGUCGUCGGAGUCGGCGAAAACGUUGU_CACU
....((((((((....))))))))....................(((((((....((((((((((......)))).))))))..)))))))........... (-21.20 = -22.64 +   1.44)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:50 2006