Locus 1887

Sequence ID 2L_DroMel_CAF1
Location 5,184,804 – 5,184,914
Length 110
Max. P 0.680089
window3031

overview

Window 1

Location 5,184,804 – 5,184,914
Length 110
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 75.11
Mean single sequence MFE -34.82
Consensus MFE -22.68
Energy contribution -22.22
Covariance contribution -0.47
Combinations/Pair 1.43
Mean z-score -1.24
Structure conservation index 0.65
SVM decision value 0.30
SVM RNA-class probability 0.680089
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5184804 110 + 22407834
---CACCAACGC------UUGGUAACCUCGAUCAGUUGCGUCUGAAUCUGUAUCUGGACGAUUGGCAGCCAGCUAGUGUGGAUGCACAUUUGGCUGACGAUUUGUUCGAUGGAUUGAAA
---.((((....------.))))....((((((.(((((((((..((....))..)))))((((.(((((((...(((((....)))))))))))).)))).....)))).)))))).. ( -32.20)
>DroVir_CAF1 101743 113 + 1
---CAGCAGCGCCUG---UCAGCAGUCUCGAUCAGUUGCGUCUAAAUCUGUACCUGGAUGACUGGCAAACGGGCAGCAUCGAUGCAGAUUUAUUCGAGAGCAGCAUCGACAGACUGAAA
---..((((...)))---)...((((((((((..(((((.((((((((((((..(.((((.(((.(.....).))))))).)))))))))))...))..))))))))))..)))))... ( -37.20)
>DroPse_CAF1 80403 119 + 1
CAGCACUAACACCGAGCAGUGGCAAUUUCGACCAGUUGCGGCUUAAUCUGUAUCUGGACGAUUGGCAAUCAGCUGGCGUCAAUGCAGAUUUAGUCGAGGACACUAUUGAGAGAUUGAAA
.........(((......))).(((((((.....(((.(((((.(((((((((...((((.(..((.....))..))))).))))))))).)))))..))).(....).)))))))... ( -36.60)
>DroSec_CAF1 62039 110 + 1
---CACCAUCAC------UUGGCAACCUCGAUCAGUUGCGUCUGAAUCUGUAUCUGGACGAUUGGCAGCCAGCUAGUGUCGAUGCACAUUUGGCCAACGAUUUGUUCGACGGACUGAAA
---..(((....------.)))...((((((.(((...((((..(((.((((((..(((.((((((.....))))))))))))))).)))..)...)))..))).)))).))....... ( -31.00)
>DroYak_CAF1 63410 110 + 1
---CACCAUCGG------UUGGCAACCUCGAUCAGUUGCGUCUGAAUCUGUAUCUGGACGAUUGGCAGCCAGCUAGUGUUGAUGCAGAUUUGGCCGACAAUUUGUUCGACAGACUAAAU
---.......((------(((....).((((.((((((((.(..((((((((((..(((.((((((.....)))))))))))))))))))..).)).))).))).))))..)))).... ( -35.30)
>DroPer_CAF1 74858 119 + 1
CAGCACCAACACCGAGCAGUGGCAAUUUCGACCAGUUGCGGCUUAAUCUGUAUCUGGACGAUUGGCAAUCAGCUGGCGUCAAUGCAGAUUUAGUCGAGGACACUAUUGAGAGAUUGAAA
.........(((......))).(((((((.....(((.(((((.(((((((((...((((.(..((.....))..))))).))))))))).)))))..))).(....).)))))))... ( -36.60)
>consensus
___CACCAACAC______UUGGCAACCUCGAUCAGUUGCGUCUGAAUCUGUAUCUGGACGAUUGGCAACCAGCUAGCGUCGAUGCAGAUUUAGCCGACGACAUGAUCGACAGACUGAAA
.....................(((((........)))))(.(((((((((((((..((((.(((((.....)))))))))))))))))))))).)........................ (-22.68 = -22.22 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:46 2006