Locus 6534

Sequence ID 2R_DroMel_CAF1
Location 20,426,280 – 20,426,388
Length 108
Max. P 0.996833
window10407 window10408

overview

Window 7

Location 20,426,280 – 20,426,388
Length 108
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 93.64
Mean single sequence MFE -36.80
Consensus MFE -34.63
Energy contribution -34.36
Covariance contribution -0.27
Combinations/Pair 1.06
Mean z-score -1.74
Structure conservation index 0.94
SVM decision value 2.52
SVM RNA-class probability 0.994892
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20426280 108 + 20766785
AGUCAGAAUGCCUGACCCACAAGUGAGGCAAUGAAGGCAAGG-------CACGGCCUUCUAUUCUCCUGCCGUGGGCCAACUUUCUGCCACAUUUUCGAAGGUUGUUUUUGAACU
..((((((.......(((((.((.((((....((((((....-------....))))))...))))))...))))).((((((((............)))))))).))))))... ( -32.60)
>DroSec_CAF1 35695 114 + 1
AGUCAGAAUGCCUGACCCACAAGUGAGACAAUGAAGGCAAGGCAUCG-GCACGGCCUUCUAUUCUCCUGCCGUGGGCCAACUUUCUGCCACAUUUUCGAAGGUUGUUUUUGAACU
..((((((.......(((((.((.((((....((((((...((....-))...))))))...))))))...))))).((((((((............)))))))).))))))... ( -37.10)
>DroSim_CAF1 36079 114 + 1
AGUCAGAAUGCCUGACCCACAAGUGAGACAAUGAAGGCAAGGCAUCG-GCACGGCCUUCUAUUCUCCUGCCGUGGGCCAACUUUCUGCCACAUUUUCGAAGGUUGUUUUUGAACU
..((((((.......(((((.((.((((....((((((...((....-))...))))))...))))))...))))).((((((((............)))))))).))))))... ( -37.10)
>DroEre_CAF1 36363 114 + 1
AGUCAGAAUGCCUGACCCACAAGUGAGACAAUGAAGGCAAGGUGUUGUGCACGGCCUUCUCUUCUCCUGCCGUGGGCCAACUUUCUGCCACAUUUUCGAAGGUUGUU-UUGAACU
..((((((.......(((((.((.((((....((((((...(((.....))).))))))...))))))...))))).((((((((............))))))))))-))))... ( -37.00)
>DroYak_CAF1 36390 115 + 1
AGUCAGAAAGCCUGACCCACAAGUGAGACAAUGAAGGCGAGGUGUUGUGCACGGCCUUCAGCUCUCCUGCCGUGGGCCAACUUUCUGCCACAUUUUCGAAGGUUGUUUUUGAACU
.(.(((((((..((.(((((.((.((((...(((((((...(((.....))).)))))))..))))))...))))).)).))))))).).....(((((((.....))))))).. ( -40.20)
>consensus
AGUCAGAAUGCCUGACCCACAAGUGAGACAAUGAAGGCAAGGCAUCG_GCACGGCCUUCUAUUCUCCUGCCGUGGGCCAACUUUCUGCCACAUUUUCGAAGGUUGUUUUUGAACU
.(((((.....)))))((((.((.((((....((((((...((.....))...))))))...))))))...))))..((((((((............)))))))).......... (-34.63 = -34.36 +  -0.27)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,426,280 – 20,426,388
Length 108
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 93.64
Mean single sequence MFE -37.78
Consensus MFE -34.34
Energy contribution -34.62
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -1.95
Structure conservation index 0.91
SVM decision value 2.76
SVM RNA-class probability 0.996833
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20426280 108 - 20766785
AGUUCAAAAACAACCUUCGAAAAUGUGGCAGAAAGUUGGCCCACGGCAGGAGAAUAGAAGGCCGUG-------CCUUGCCUUCAUUGCCUCACUUGUGGGUCAGGCAUUCUGACU
..........................(((((((.((((((((((((.(((..(((.((((((....-------....))))))))).)))...)))))))))).)).))))).)) ( -33.30)
>DroSec_CAF1 35695 114 - 1
AGUUCAAAAACAACCUUCGAAAAUGUGGCAGAAAGUUGGCCCACGGCAGGAGAAUAGAAGGCCGUGC-CGAUGCCUUGCCUUCAUUGUCUCACUUGUGGGUCAGGCAUUCUGACU
..........................(((((((.((((((((((((...((((...((((((...((-....))...))))))....))))..)))))))))).)).))))).)) ( -37.40)
>DroSim_CAF1 36079 114 - 1
AGUUCAAAAACAACCUUCGAAAAUGUGGCAGAAAGUUGGCCCACGGCAGGAGAAUAGAAGGCCGUGC-CGAUGCCUUGCCUUCAUUGUCUCACUUGUGGGUCAGGCAUUCUGACU
..........................(((((((.((((((((((((...((((...((((((...((-....))...))))))....))))..)))))))))).)).))))).)) ( -37.40)
>DroEre_CAF1 36363 114 - 1
AGUUCAA-AACAACCUUCGAAAAUGUGGCAGAAAGUUGGCCCACGGCAGGAGAAGAGAAGGCCGUGCACAACACCUUGCCUUCAUUGUCUCACUUGUGGGUCAGGCAUUCUGACU
.......-..................(((((((.((((((((((((...((((.((((((((.(((.....)))...)))))).)).))))..)))))))))).)).))))).)) ( -38.10)
>DroYak_CAF1 36390 115 - 1
AGUUCAAAAACAACCUUCGAAAAUGUGGCAGAAAGUUGGCCCACGGCAGGAGAGCUGAAGGCCGUGCACAACACCUCGCCUUCAUUGUCUCACUUGUGGGUCAGGCUUUCUGACU
..........................((((((((((((((((((((...((((..(((((((.(((.....)))...)))))))...))))..)))))))))).)))))))).)) ( -42.70)
>consensus
AGUUCAAAAACAACCUUCGAAAAUGUGGCAGAAAGUUGGCCCACGGCAGGAGAAUAGAAGGCCGUGC_CAACACCUUGCCUUCAUUGUCUCACUUGUGGGUCAGGCAUUCUGACU
..........................(((((((.((((((((((((...((((...((((((.(((.....)))...))))))....))))..)))))))))).)).))))).)) (-34.34 = -34.62 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:15 2006