Locus 10329

Sequence ID 3R_DroMel_CAF1
Location 27,753,461 – 27,753,556
Length 95
Max. P 0.989419
window16440 window16441

overview

Window 0

Location 27,753,461 – 27,753,556
Length 95
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 86.42
Mean single sequence MFE -32.02
Consensus MFE -29.02
Energy contribution -29.53
Covariance contribution 0.50
Combinations/Pair 1.07
Mean z-score -2.46
Structure conservation index 0.91
SVM decision value 2.16
SVM RNA-class probability 0.989419
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27753461 95 + 27905053
GCUCACAUGCUCACAUGCUCCUGCCAGACUCUUUAGUUUGGCAGUUUGCUAGUUUCCUGGUGUGCUAGUGAG--------CUCGUGUGCUCGGUGGAUUAGUA
((.(((..((((((..((..((((((((((....))))))))))...(((((....)))))..))..)))))--------)..))).)).............. ( -37.20)
>DroSec_CAF1 67641 86 + 1
GCUCA--------UAUGCUCCUGCCAGACUCC-UAGUUUGGCAGUUUGCUAGUUUCCUGGUGUGCUAGUGAG--------CUCGUGUGCUCGGUGGAUUAGUA
((...--------...))..(((((((((...-..)))))))))..((((((((..((((((..(.((....--------)).)..))).)))..)))))))) ( -32.40)
>DroSim_CAF1 67884 86 + 1
GCUCA--------UAUGCUCCUGCCACACUCC-UAGUUUGGCAGUUUGCUAGUUUCCUGGUGUGCUAGUGAG--------CUCGUGUGCUCGGUGGAUUAGUA
((...--------...))..((((((.((...-..)).))))))..((((((((..((((((..(.((....--------)).)..))).)))..)))))))) ( -28.80)
>DroEre_CAF1 72589 94 + 1
GCUCA--------UAUUCUCCUGCCAGUCUCG-UAGUUUGGCAGUUUGCUAGUUUCCUGGUGAGCUAGUGAGCUCGUGAGCUCGUGUGCUUGGUGGAUUAGUG
.....--------.......(((((((.(...-..).)))))))...(((((((..((...((((...((((((....))))))...))))))..))))))). ( -29.70)
>consensus
GCUCA________UAUGCUCCUGCCAGACUCC_UAGUUUGGCAGUUUGCUAGUUUCCUGGUGUGCUAGUGAG________CUCGUGUGCUCGGUGGAUUAGUA
....................((((((((((....))))))))))..((((((((..((((.(..(...((((((....)))))).)..)))))..)))))))) (-29.02 = -29.53 +   0.50)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 27,753,461 – 27,753,556
Length 95
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 86.42
Mean single sequence MFE -26.28
Consensus MFE -18.90
Energy contribution -19.52
Covariance contribution 0.63
Combinations/Pair 1.00
Mean z-score -2.87
Structure conservation index 0.72
SVM decision value 1.56
SVM RNA-class probability 0.963968
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27753461 95 - 27905053
UACUAAUCCACCGAGCACACGAG--------CUCACUAGCACACCAGGAAACUAGCAAACUGCCAAACUAAAGAGUCUGGCAGGAGCAUGUGAGCAUGUGAGC
..............((.((((.(--------(((((..((.....((....))......((((((.(((....))).))))))..))..)))))).)))).)) ( -34.10)
>DroSec_CAF1 67641 86 - 1
UACUAAUCCACCGAGCACACGAG--------CUCACUAGCACACCAGGAAACUAGCAAACUGCCAAACUA-GGAGUCUGGCAGGAGCAUA--------UGAGC
............((((......)--------)))....((.((..((....)).((...((((((.((..-...)).))))))..))...--------)).)) ( -23.10)
>DroSim_CAF1 67884 86 - 1
UACUAAUCCACCGAGCACACGAG--------CUCACUAGCACACCAGGAAACUAGCAAACUGCCAAACUA-GGAGUGUGGCAGGAGCAUA--------UGAGC
............((((......)--------)))....((.((..((....)).((...((((((.((..-...)).))))))..))...--------)).)) ( -23.10)
>DroEre_CAF1 72589 94 - 1
CACUAAUCCACCAAGCACACGAGCUCACGAGCUCACUAGCUCACCAGGAAACUAGCAAACUGCCAAACUA-CGAGACUGGCAGGAGAAUA--------UGAGC
....................(((((....)))))....(((((..((....))......((((((..(..-...)..)))))).......--------))))) ( -24.80)
>consensus
UACUAAUCCACCGAGCACACGAG________CUCACUAGCACACCAGGAAACUAGCAAACUGCCAAACUA_GGAGUCUGGCAGGAGCAUA________UGAGC
......(((.....((....(((((....)))))...........((....)).))....(((((.(((....))).)))))))).................. (-18.90 = -19.52 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:54:11 2006