Locus 8291

Sequence ID 3L_DroMel_CAF1
Location 21,740,610 – 21,740,770
Length 160
Max. P 0.965796
window13564 window13565

overview

Window 4

Location 21,740,610 – 21,740,730
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.54
Mean single sequence MFE -35.70
Consensus MFE -26.50
Energy contribution -27.18
Covariance contribution 0.68
Combinations/Pair 1.10
Mean z-score -1.80
Structure conservation index 0.74
SVM decision value 0.25
SVM RNA-class probability 0.652784
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21740610 120 + 23771897
UCCGUAUCGCUUCAAGUGGCCACAAUUUGAGGCAGAUUGCGCUCUAAUAAAUAUGGGCAGCCAUCUAAGCUAAUGCCCCAACUCAUCACCGAGUUGAGAGAUGAGCACGCAAGCAGGCGA
..(((...(((((((((.......))))))))).(.((((((((..........)))).(((((((..((....))..((((((......))))))..))))).))..)))).)..))). ( -38.90)
>DroSec_CAF1 22513 120 + 1
UUCGUAUCGCUUCAAGUGGCCACAAUUUGAGGCAGAUUGCGCUCUAAUAAAUAUGGGCAGCCAUCAAAGCUAAUGCCCCAACUCAUCACCGAGUUGGGAGAUGAGCACGCGAGCAGGCAA
...((...(((((((((.......))))))))).(.((((((((..........)))).((((((...((....))((((((((......)))))))).)))).))..)))).)..)).. ( -42.60)
>DroSim_CAF1 27390 120 + 1
UUCGUAUCGCUCCAAGUGGCCACAAUUUGAGGCAGAUUGCGCUCUAAUAAAUAUGGGCAGCCAUCAAAGCUAAUGCCCCAACUCAUCACCGAGUUGGGAGAUGAGCACGCGAGCAGGCGA
.((((...((((......(((.(.....).))).....((((((..........)))).((((((...((....))((((((((......)))))))).)))).))..))))))..)))) ( -43.00)
>DroEre_CAF1 8642 115 + 1
UCUAUAUCGCUCCAAGUGGCCACAAUUUGAGGCAGAUAGCGCUCUAAUAAAUAUGUGCAGCCAUCAAAGCUAAUGCCCCAACUCAUCACCG-----GGAGAUGAACACGCGAGCAGGCCA
........((((...(((........(((.((((....((((............))))(((.......)))..)))).))).(((((....-----...))))).)))..))))...... ( -27.50)
>DroYak_CAF1 80553 115 + 1
UCUGUAUCGCUUCCAGUGGCAAAAAUUUGAGGCAGAUUGCGCUCUAAUAAAUAUGAGCAACCAUCAAAGCUAAUGCACCAACUCAUCACCG-----GGAGAUGAACACGAGAGCAGGCCA
(((((.((((((((.((((......(((((.((.....))((((..........)))).....)))))((....)).........)))).)-----)))).......)))..)))))... ( -26.51)
>consensus
UCCGUAUCGCUUCAAGUGGCCACAAUUUGAGGCAGAUUGCGCUCUAAUAAAUAUGGGCAGCCAUCAAAGCUAAUGCCCCAACUCAUCACCGAGUUGGGAGAUGAGCACGCGAGCAGGCCA
........((((...(((........(((.(((((((.((((((..........)))).)).)))........)))).)))((((((.((......)).)))))))))..))))...... (-26.50 = -27.18 +   0.68)

alignment

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secondary structure

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dotplot

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Window 5

Location 21,740,650 – 21,740,770
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.39
Mean single sequence MFE -40.26
Consensus MFE -35.30
Energy contribution -35.62
Covariance contribution 0.32
Combinations/Pair 1.12
Mean z-score -1.69
Structure conservation index 0.88
SVM decision value 1.59
SVM RNA-class probability 0.965796
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21740650 120 - 23771897
UUAAUUAAGUUUGGGCCUUGGCAACGGGCGCAUGCGUAUCUCGCCUGCUUGCGUGCUCAUCUCUCAACUCGGUGAUGAGUUGGGGCAUUAGCUUAGAUGGCUGCCCAUAUUUAUUAGAGC
(((((.((((.(((((....((((((((((...........)))))).))))..((.((((((((((((((....)))))))))((....))..))))))).))))).)))))))))... ( -43.30)
>DroSec_CAF1 22553 120 - 1
UUAAUUAAGUUUGGGCCUUGGCAACGGGCGCAUGCGUAUCUUGCCUGCUCGCGUGCUCAUCUCCCAACUCGGUGAUGAGUUGGGGCAUUAGCUUUGAUGGCUGCCCAUAUUUAUUAGAGC
(((((.((((.(((((..((....))((((((((((...(......)..))))))).((((.(((((((((....)))))))))((....))...)))))))))))).)))))))))... ( -44.90)
>DroSim_CAF1 27430 120 - 1
UUAAUUAAGUUUGGGCCUUGGCAACGGGCGCAUGCGUAUCUCGCCUGCUCGCGUGCUCAUCUCCCAACUCGGUGAUGAGUUGGGGCAUUAGCUUUGAUGGCUGCCCAUAUUUAUUAGAGC
(((((.((((.(((((...(((.(((.(.(((.(((.....))).))).).)))(((.((.((((((((((....)))))))))).)).))).......)))))))).)))))))))... ( -45.90)
>DroEre_CAF1 8682 115 - 1
UUAAUUAAGUUUGGGCCUUGGCAACGGGCGCAUGCGUAUCUGGCCUGCUCGCGUGUUCAUCUCC-----CGGUGAUGAGUUGGGGCAUUAGCUUUGAUGGCUGCACAUAUUUAUUAGAGC
(((((.((((.((.((((..((.(((.(.(((.((.......)).))).).)))..(((((...-----....)))))))..))))..(((((.....)))))..)).)))))))))... ( -34.50)
>DroYak_CAF1 80593 115 - 1
UUAAUUAAGUUUGGGCCUUGGCAACGGGCUCAUGCGUAUCUGGCCUGCUCUCGUGUUCAUCUCC-----CGGUGAUGAGUUGGUGCAUUAGCUUUGAUGGUUGCUCAUAUUUAUUAGAGC
........((.(((((((.(....)))))))).)).......(((.((((......(((((...-----.))))).)))).)))......((((((((((..........)))))))))) ( -32.70)
>consensus
UUAAUUAAGUUUGGGCCUUGGCAACGGGCGCAUGCGUAUCUCGCCUGCUCGCGUGCUCAUCUCCCAACUCGGUGAUGAGUUGGGGCAUUAGCUUUGAUGGCUGCCCAUAUUUAUUAGAGC
(((((.((((.(((((((..((.(((.(.(((.(((.....))).))).).)))..(((((.((......)).)))))))..))))..(((((.....))))).))).)))))))))... (-35.30 = -35.62 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:11:40 2006