Locus 8451

Sequence ID 3R_DroMel_CAF1
Location 22,547,438 – 22,547,531
Length 93
Max. P 0.910009
window13600 window13601

overview

Window 0

Location 22,547,438 – 22,547,531
Length 93
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 82.55
Mean single sequence MFE -44.48
Consensus MFE -34.47
Energy contribution -33.56
Covariance contribution -0.91
Combinations/Pair 1.25
Mean z-score -2.71
Structure conservation index 0.77
SVM decision value 1.07
SVM RNA-class probability 0.910009
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22547438 93 + 27905053
GCCCGCAUUCGAUGAAGUUGAGGCGGGAGUGGCUGCCUCGGUGUCGCAGUCGUCGGGC---------------GAGGAUUGCGAGGAUAUCGUGCAGUUGGCGGUUGA
.(((((.((((((...))))))))))).((.(((((..(((((((((((((.((....---------------)).))))))...))))))).)))).).))...... ( -39.40)
>DroPse_CAF1 3328 108 + 1
UGCCGCAUUCGAUGAUGUGGAGGCCGGGGUGGCUGCCUCCGUUUCGCAGUCCUCGGGCGGGGUAUUGGCAUUCGAGGACUGCGAGGAUAUCGUGCAGUUGGCGGUGGA
.(((((...(.(((((((((((((.(......).)))))).((((((((((((((.((.(.....).))...)))))))))))))))))))))...)...)))))... ( -52.00)
>DroEre_CAF1 3363 93 + 1
GCCUGCAUUCGAUGAAGUCGAGGCGGGAGUGGCUGCCUCGGUGUCGCAGUCGUCGGGC---------------GAGGAUUGUGAGGAUAUCGUGCAGUUGGCGGUGGA
(((((((..(((((...(((((((((......)))))))))(.((((((((.((....---------------)).)))))))).).)))))))))...)))...... ( -40.30)
>DroYak_CAF1 3398 93 + 1
GCCCGCAUUCGAUGAAGUCGAGGCGGGAGUGGCUGCCUCGGUGUCGCAGUCGUCGGGC---------------GAGGAUUGUGAGGAUAUCGUGCAGUUGGCGGUUGA
.(((((.((((((...))))))))))).((.(((((..(((((((((((((.((....---------------)).))))))...))))))).)))).).))...... ( -40.10)
>DroAna_CAF1 3484 93 + 1
UACUGCAUUCGAGGACGUGGAGGCGGGAGUCGCUGCCUCUGUGUCGCAAUCGUCCGGC---------------GAUGAUUGCGAUGAUAUCGUGCAGUUGGCGGUGGA
.((((((..(((.((((..(((((((......)))))))..))))(((((((((....---------------))))))))).......))))))))).......... ( -43.10)
>DroPer_CAF1 3266 108 + 1
UGCCGCAUUCGAUGAUGUGGAGGCCGGGGUGGCUGCCUCCGUUUCGCAGUCCUCGGGCGGGGUAUUGGCAUUCGAGGACUGCGAGGAUAUCGUGCAGUUGGCGGUGGA
.(((((...(.(((((((((((((.(......).)))))).((((((((((((((.((.(.....).))...)))))))))))))))))))))...)...)))))... ( -52.00)
>consensus
GCCCGCAUUCGAUGAAGUGGAGGCGGGAGUGGCUGCCUCGGUGUCGCAGUCGUCGGGC_______________GAGGAUUGCGAGGAUAUCGUGCAGUUGGCGGUGGA
..((((...(((((...(((((((((......)))))))))..((((((((.((...................)).))))))))...)))))........)))).... (-34.47 = -33.56 +  -0.91)

alignment

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secondary structure

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dotplot

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Window 1

Location 22,547,438 – 22,547,531
Length 93
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 82.55
Mean single sequence MFE -31.33
Consensus MFE -21.49
Energy contribution -21.88
Covariance contribution 0.39
Combinations/Pair 1.08
Mean z-score -2.63
Structure conservation index 0.69
SVM decision value 0.72
SVM RNA-class probability 0.833270
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22547438 93 - 27905053
UCAACCGCCAACUGCACGAUAUCCUCGCAAUCCUC---------------GCCCGACGACUGCGACACCGAGGCAGCCACUCCCGCCUCAACUUCAUCGAAUGCGGGC
...........(((((((((....(((((.((.((---------------....)).)).)))))....(((((..........)))))......))))..))))).. ( -26.30)
>DroPse_CAF1 3328 108 - 1
UCCACCGCCAACUGCACGAUAUCCUCGCAGUCCUCGAAUGCCAAUACCCCGCCCGAGGACUGCGAAACGGAGGCAGCCACCCCGGCCUCCACAUCAUCGAAUGCGGCA
......(((....(((((((....((((((((((((...((.........)).))))))))))))...((((((..........)))))).....))))..)))))). ( -43.30)
>DroEre_CAF1 3363 93 - 1
UCCACCGCCAACUGCACGAUAUCCUCACAAUCCUC---------------GCCCGACGACUGCGACACCGAGGCAGCCACUCCCGCCUCGACUUCAUCGAAUGCAGGC
...........(((((((((....((.((.((.((---------------....)).)).)).))...((((((..........)))))).....))))..))))).. ( -23.40)
>DroYak_CAF1 3398 93 - 1
UCAACCGCCAACUGCACGAUAUCCUCACAAUCCUC---------------GCCCGACGACUGCGACACCGAGGCAGCCACUCCCGCCUCGACUUCAUCGAAUGCGGGC
...........(((((((((....((.((.((.((---------------....)).)).)).))...((((((..........)))))).....))))..))))).. ( -22.70)
>DroAna_CAF1 3484 93 - 1
UCCACCGCCAACUGCACGAUAUCAUCGCAAUCAUC---------------GCCGGACGAUUGCGACACAGAGGCAGCGACUCCCGCCUCCACGUCCUCGAAUGCAGUA
..........(((((((((.....((((((((.((---------------....)).))))))))....(((((..........))))).......)))..)))))). ( -29.00)
>DroPer_CAF1 3266 108 - 1
UCCACCGCCAACUGCACGAUAUCCUCGCAGUCCUCGAAUGCCAAUACCCCGCCCGAGGACUGCGAAACGGAGGCAGCCACCCCGGCCUCCACAUCAUCGAAUGCGGCA
......(((....(((((((....((((((((((((...((.........)).))))))))))))...((((((..........)))))).....))))..)))))). ( -43.30)
>consensus
UCCACCGCCAACUGCACGAUAUCCUCGCAAUCCUC_______________GCCCGACGACUGCGACACCGAGGCAGCCACUCCCGCCUCCACUUCAUCGAAUGCGGGA
...........(((((((((....(((((.((.((...................)).)).)))))...((((((..........)))))).....))))..))))).. (-21.49 = -21.88 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:11:43 2006