Locus 4413

Sequence ID 2L_DroMel_CAF1
Location 12,696,599 – 12,696,716
Length 117
Max. P 0.950595
window6950 window6951

overview

Window 0

Location 12,696,599 – 12,696,716
Length 117
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 80.11
Mean single sequence MFE -45.10
Consensus MFE -30.64
Energy contribution -32.03
Covariance contribution 1.39
Combinations/Pair 1.24
Mean z-score -2.69
Structure conservation index 0.68
SVM decision value 1.40
SVM RNA-class probability 0.950595
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12696599 117 + 22407834
CUGCUGCUCCAAACGCCGAUCCAUCCGUAUCCUUUUCCUCUCGUCAUACACUUGGCGGCGCAGAGCACGCUCCGACGUAUGGAGAUGAAAAGGUUUUGGAUGGGUAAAGGAGGACUU
.......(((.....((.(((((((((...(((((((.((((..(((((..((((.((((.......)))))))).))))))))).)))))))...)))))))))...)).)))... ( -44.20)
>DroSec_CAF1 335 117 + 1
CUGCUGCUCCAAACGCCGAUCCAUCCGUAUCCUUUUCCUCUCGUCAUACAUUUGGCGGCGCAGAGCUCGCUCCGACGUAUGGAGAUGAAAAGGUUUUGGAUGGGUAAAGGAGGACUU
.......(((.....((.(((((((((...(((((((.((((..(((((.((.((((((.....)).))).).)).))))))))).)))))))...)))))))))...)).)))... ( -44.30)
>DroSim_CAF1 335 117 + 1
CUGCUGCUCCAAACGCCGAUCCAUCCGUAUCCUUUUCCUCUCGUCAUACAUUUGGCGGCGCAGAGCUCGCUCCGACGUAUGGAGAUGAAAAGGUUUUGGAUGUGUAAAGGAGGAUUU
.......(((.....((.(..((((((...(((((((.((((..(((((.((.((((((.....)).))).).)).))))))))).)))))))...))))))..)...)).)))... ( -38.70)
>DroEre_CAF1 304 117 + 1
CAGCUGUUCCAUCCGCAGAUCCAUCCGUAUCCUUUUCCUCUCGUCAUACAGUUGGCGGCUCAGAGCCCGUGCCGACGUAUGGAGACGAAAAGGUUUUGGAUGGGUGUAGGAGGACCU
.......(((.(((..(.(((((((((...(((((((.((((..(((((.(((((((((.....)))...))))))))))))))).)))))))...))))))))).).))))))... ( -54.10)
>DroYak_CAF1 342 117 + 1
CAGCUGAUCCAAGCGCUGAUCCAUCCGUAUCCUUUUCCUCUCGUCAUACAGUUGGCGACUCAGAGCCCGAUCCGACGUAUGGAGACGAAAAGGUUUUGGGUGGGUAUAGGAGGACUU
..(((......))).((((((((((((...(((((((.((((..(((((.(((((((..........))..)))))))))))))).)))))))...))))))))).)))........ ( -41.70)
>DroAna_CAF1 701 117 + 1
CUUCUGCUGCCACUUCUGCAUCAUCCGCAUCCGAGACCACUCGUCGAACUUCCGACGGUGCUCAGCCCGCACCUCAGAGUGAAGGUUAAAGGGCUGCGGCUUGAUGAAAGUGGACAC
.......((((((((...(((((.((((((((..((((((((((((......))))(((((.......)))))...))))...))))...))).)))))..))))).)))))).)). ( -47.60)
>consensus
CUGCUGCUCCAAACGCCGAUCCAUCCGUAUCCUUUUCCUCUCGUCAUACAUUUGGCGGCGCAGAGCCCGCUCCGACGUAUGGAGAUGAAAAGGUUUUGGAUGGGUAAAGGAGGACUU
.......(((.....((.(((((((((...(((((((.((((((((......))))((.((.......)).))........)))).)))))))...)))))))))...)).)))... (-30.64 = -32.03 +   1.39)

alignment

Postscript

secondary structure

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dotplot

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Window 1

Location 12,696,599 – 12,696,716
Length 117
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 80.11
Mean single sequence MFE -41.50
Consensus MFE -24.93
Energy contribution -27.15
Covariance contribution 2.23
Combinations/Pair 1.12
Mean z-score -1.98
Structure conservation index 0.60
SVM decision value 0.52
SVM RNA-class probability 0.768423
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12696599 117 - 22407834
AAGUCCUCCUUUACCCAUCCAAAACCUUUUCAUCUCCAUACGUCGGAGCGUGCUCUGCGCCGCCAAGUGUAUGACGAGAGGAAAAGGAUACGGAUGGAUCGGCGUUUGGAGCAGCAG
..((.((((...((((((((....(((((((.((((((((((...(.(((.((.....))))))...))))))..)))).)))))))....))))))......))..))))..)).. ( -39.30)
>DroSec_CAF1 335 117 - 1
AAGUCCUCCUUUACCCAUCCAAAACCUUUUCAUCUCCAUACGUCGGAGCGAGCUCUGCGCCGCCAAAUGUAUGACGAGAGGAAAAGGAUACGGAUGGAUCGGCGUUUGGAGCAGCAG
..((.((((...((((((((....(((((((.(((((((((((..(.(((.((.....))))))..)))))))..)))).)))))))....))))))......))..))))..)).. ( -41.70)
>DroSim_CAF1 335 117 - 1
AAAUCCUCCUUUACACAUCCAAAACCUUUUCAUCUCCAUACGUCGGAGCGAGCUCUGCGCCGCCAAAUGUAUGACGAGAGGAAAAGGAUACGGAUGGAUCGGCGUUUGGAGCAGCAG
.....((((...((.(((((....(((((((.(((((((((((..(.(((.((.....))))))..)))))))..)))).)))))))....)))))(.....)))..))))...... ( -38.70)
>DroEre_CAF1 304 117 - 1
AGGUCCUCCUACACCCAUCCAAAACCUUUUCGUCUCCAUACGUCGGCACGGGCUCUGAGCCGCCAACUGUAUGACGAGAGGAAAAGGAUACGGAUGGAUCUGCGGAUGGAACAGCUG
.(.((((((.....((((((....(((((((.(((((((((((.(((...(((.....)))))).)).)))))..)))).)))))))....))))))......))).))).)..... ( -45.60)
>DroYak_CAF1 342 117 - 1
AAGUCCUCCUAUACCCACCCAAAACCUUUUCGUCUCCAUACGUCGGAUCGGGCUCUGAGUCGCCAACUGUAUGACGAGAGGAAAAGGAUACGGAUGGAUCAGCGCUUGGAUCAGCUG
..............(((.((....(((((((.(((((((((((.((.((((...))))....)).)).)))))..)))).)))))))....)).)))..((((..........)))) ( -33.80)
>DroAna_CAF1 701 117 - 1
GUGUCCACUUUCAUCAAGCCGCAGCCCUUUAACCUUCACUCUGAGGUGCGGGCUGAGCACCGUCGGAAGUUCGACGAGUGGUCUCGGAUGCGGAUGAUGCAGAAGUGGCAGCAGAAG
((..((((((((((((..(((((((((....(((((......)))))..)))))((.(((((((((....)))))).))).))......)))).)))))..)))))))..))..... ( -49.90)
>consensus
AAGUCCUCCUUUACCCAUCCAAAACCUUUUCAUCUCCAUACGUCGGAGCGGGCUCUGCGCCGCCAAAUGUAUGACGAGAGGAAAAGGAUACGGAUGGAUCGGCGUUUGGAGCAGCAG
...(((........((((((....(((((((.((((((((((.(((.(((.....))).))).....))))))..)))).)))))))....))))))..........)))....... (-24.93 = -27.15 +   2.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:15 2006