Locus 6694

Sequence ID 2L_DroMel_CAF1
Location 18,727,615 – 18,727,775
Length 160
Max. P 0.902223
window10686 window10687

overview

Window 6

Location 18,727,615 – 18,727,735
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.83
Mean single sequence MFE -38.28
Consensus MFE -36.70
Energy contribution -37.10
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.24
Structure conservation index 0.96
SVM decision value 0.42
SVM RNA-class probability 0.728250
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18727615 120 - 22407834
GGCUGAGCGAUCGUCGAGAGGAAACUGAAACGACUGGGAAGUGCGGUGAGAUUGGAUCGAAGCGGCUUGGCCGGGGAUCGAUGUCAACUCCGGGGAGAACAGCUCGCCAAUUAAAACGUA
(((.((((((.((((((.((....)).......((.((....((.((..(((...)))...)).))....)).))..))))))))..(((....)))....)))))))............ ( -38.40)
>DroSec_CAF1 20179 120 - 1
GGCUGAGCGAUCGUCGAGAGGAAACUGAAACGACUGGGAAGUGCGGUGAGAUUGGAUCGAAGCGGCUUGGCCGGGGAUCGAUGUCAACUCCGGGGAGAACAGCUCGCCAAUUAAAACGAA
(((.((((((.((((((.((....)).......((.((....((.((..(((...)))...)).))....)).))..))))))))..(((....)))....)))))))............ ( -38.40)
>DroSim_CAF1 18656 120 - 1
GGCUGAGCGAUCGUCGAGAGGAAACUGAAACGACUGGGAAGUGCGGUGAGAUUGGAUCGAAGCGGCUUGGCCGGGGAUCGAUGUCAACUCCGGGGAGAACAGCUCGCCAAUUAAAACGAA
(((.((((((.((((((.((....)).......((.((....((.((..(((...)))...)).))....)).))..))))))))..(((....)))....)))))))............ ( -38.40)
>DroEre_CAF1 20414 120 - 1
GGCUGAGCGAUCGUCGAGAGGAAACUAAAACGACUGGGAAGUGCGGAGAGAUUGGAUCGAAGCGGCUUGGCCGGGGAUCGAUGUCAACUCCGGGGAGAACAGCUCGCCAAUUAAAACGAA
(((.((((..((((((..((....))....)))).........(((((...(((((((((..((((...))))....))))).)))))))))....))...)))))))............ ( -38.50)
>DroYak_CAF1 20434 120 - 1
GGCUGAGCGAUCGUCGAGAGGAAACUGAAACGACUGGGAAGUGCGGACAGAUUGAAUCGAAGCGGCUUGGCCGGGGAUCGAUGUCAACUCCGGGGAGAACAGCUCGCCAAUUAAAAAGAA
(((.((((..((.(((.(((....(((...(((((....))).))..))).(((((((((..((((...))))....))))).)))))))))).)).....)))))))............ ( -37.70)
>consensus
GGCUGAGCGAUCGUCGAGAGGAAACUGAAACGACUGGGAAGUGCGGUGAGAUUGGAUCGAAGCGGCUUGGCCGGGGAUCGAUGUCAACUCCGGGGAGAACAGCUCGCCAAUUAAAACGAA
(((.((((((.((((((.((....)).......((.((....((.((..(((...)))...)).))....)).))..))))))))..(((....)))....)))))))............ (-36.70 = -37.10 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 18,727,655 – 18,727,775
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 98.17
Mean single sequence MFE -32.70
Consensus MFE -29.62
Energy contribution -30.02
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.61
Structure conservation index 0.91
SVM decision value 1.02
SVM RNA-class probability 0.902223
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18727655 120 - 22407834
AUCCAUAAUGAAAUUAUAAAAUUGAAAAGAUUAUAGCCCGGGCUGAGCGAUCGUCGAGAGGAAACUGAAACGACUGGGAAGUGCGGUGAGAUUGGAUCGAAGCGGCUUGGCCGGGGAUCG
....................................(((.(((..(((....((((..((....))....)))).......(((..(((.......)))..))))))..))).))).... ( -33.30)
>DroSec_CAF1 20219 120 - 1
AUCCAUAAUGAAAUUAUAAAAUUGAAAAGAUUAUAGCCCGGGCUGAGCGAUCGUCGAGAGGAAACUGAAACGACUGGGAAGUGCGGUGAGAUUGGAUCGAAGCGGCUUGGCCGGGGAUCG
....................................(((.(((..(((....((((..((....))....)))).......(((..(((.......)))..))))))..))).))).... ( -33.30)
>DroSim_CAF1 18696 120 - 1
AUCCAUAAUGAAAUUAUAAAAUUGAAAAGAUUAUAGCCCGGGCUGAGCGAUCGUCGAGAGGAAACUGAAACGACUGGGAAGUGCGGUGAGAUUGGAUCGAAGCGGCUUGGCCGGGGAUCG
....................................(((.(((..(((....((((..((....))....)))).......(((..(((.......)))..))))))..))).))).... ( -33.30)
>DroEre_CAF1 20454 120 - 1
AUCCAUAAUGAAAUUAUAAAAUUGAAAAGAUUAUAGCCCGGGCUGAGCGAUCGUCGAGAGGAAACUAAAACGACUGGGAAGUGCGGAGAGAUUGGAUCGAAGCGGCUUGGCCGGGGAUCG
....................................(((.(((..(((....((((..((....))....)))).......(((...((.......))...))))))..))).))).... ( -33.00)
>DroYak_CAF1 20474 119 - 1
AUCCAUAAUGAAAUUAUAAAAUUGAAAAGAUUAUAGC-CGGGCUGAGCGAUCGUCGAGAGGAAACUGAAACGACUGGGAAGUGCGGACAGAUUGAAUCGAAGCGGCUUGGCCGGGGAUCG
............................((((...((-(((((((..((((((((...((....))....(((((....))).))))).)))))........)))))))))....)))). ( -30.60)
>consensus
AUCCAUAAUGAAAUUAUAAAAUUGAAAAGAUUAUAGCCCGGGCUGAGCGAUCGUCGAGAGGAAACUGAAACGACUGGGAAGUGCGGUGAGAUUGGAUCGAAGCGGCUUGGCCGGGGAUCG
............................((((...(.((((((((..((((((((...((....))....(((((....))).))....)))..)))))...)))))))).)...)))). (-29.62 = -30.02 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:41 2006