Locus 4117

Sequence ID 2R_DroMel_CAF1
Location 13,527,919 – 13,528,029
Length 110
Max. P 0.983391
window6628 window6629

overview

Window 8

Location 13,527,919 – 13,528,029
Length 110
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 93.09
Mean single sequence MFE -30.78
Consensus MFE -24.26
Energy contribution -24.78
Covariance contribution 0.52
Combinations/Pair 1.08
Mean z-score -2.27
Structure conservation index 0.79
SVM decision value 1.40
SVM RNA-class probability 0.950467
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13527919 110 + 20766785
CAUCUGCCAAGUGGCUGUUCAUUUCAUUGUAGCCACAAUUUUCCUGGCAUGUGCACCCACUCCUCGCCAUCCUGCCACAACAAUGGCCACAAAAUGGCAGCCAGAUCCUG
..........(((((((..((......))))))))).......(((((..(((....))).....(((((...((((......))))......))))).)))))...... ( -31.50)
>DroSec_CAF1 76315 110 + 1
CAUCUGGCAAGUGGCUGUUCGUUUCAUUGUAGCCACAGUUUUCCUGGCAUGUGCACCCACUCCUCACCAUCUUGCCACAACAAUGGCCGCAAAAUGGCAGCCAGAUCCUG
.(((((((.(((((.(((.(((.(((....(((....)))....))).))).))).))))).....((((.((((..((....))...)))).))))..))))))).... ( -31.50)
>DroSim_CAF1 79125 110 + 1
CAUCUGCCAAGUGGCUGUUCGUUUCAUUGUAGCCACAAUUUUCCUGGCAUGUGCACCCACUCCUCACCAUCUUGCCACAACAAUGGCCGCAAAAUGGCAGCCAGAUCCUG
..........(((((((..((......))))))))).......(((((..(((....)))......((((.((((..((....))...)))).))))..)))))...... ( -27.70)
>DroEre_CAF1 76737 110 + 1
CAGCUGCCAAGUGGAUUUUCGUUUCAUUGUAUCCACAAUUUUGCUGGCAUGUGCACCCACUCCUCGCCAUCUUGCCACAACAAUGGCCGCAAAAUUUCAGCCAGAUCCUG
..((((....((((((...((......)).))))))((((((((((((..(((....))).....))))....((((......)))).)))))))).))))......... ( -29.30)
>DroYak_CAF1 79390 110 + 1
CAUCUGCCAAGUGGCUGUUCGUUUCAUUGUAGCCACAAUUCUGCUGCCAUGUGCACCCACUCCUCGCCAUCUUGCCACAACAAUGGCCGCAAAAUGGCAGCCAGAUAUGG
.(((((....(((((((..((......)))))))))......(((((((((((....))).....(((((..((......)))))))......))))))))))))).... ( -33.90)
>consensus
CAUCUGCCAAGUGGCUGUUCGUUUCAUUGUAGCCACAAUUUUCCUGGCAUGUGCACCCACUCCUCGCCAUCUUGCCACAACAAUGGCCGCAAAAUGGCAGCCAGAUCCUG
..........((((((...((......)).)))))).......(((((..(((....))).....(((((...((((......))))......))))).)))))...... (-24.26 = -24.78 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 13,527,919 – 13,528,029
Length 110
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 93.09
Mean single sequence MFE -38.94
Consensus MFE -32.14
Energy contribution -31.86
Covariance contribution -0.28
Combinations/Pair 1.15
Mean z-score -2.18
Structure conservation index 0.83
SVM decision value 1.94
SVM RNA-class probability 0.983391
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13527919 110 - 20766785
CAGGAUCUGGCUGCCAUUUUGUGGCCAUUGUUGUGGCAGGAUGGCGAGGAGUGGGUGCACAUGCCAGGAAAAUUGUGGCUACAAUGAAAUGAACAGCCACUUGGCAGAUG
....(((((.((((((((((((.((.......)).)))))))))))..((((((.((..(((((((.((...)).)))).........)))..)).))))))).))))). ( -39.20)
>DroSec_CAF1 76315 110 - 1
CAGGAUCUGGCUGCCAUUUUGCGGCCAUUGUUGUGGCAAGAUGGUGAGGAGUGGGUGCACAUGCCAGGAAAACUGUGGCUACAAUGAAACGAACAGCCACUUGCCAGAUG
....(((((((.((((((((((.((.......)).))))))))))...((((((.((.....((((.(.....).))))..(........)..)).))))))))))))). ( -41.50)
>DroSim_CAF1 79125 110 - 1
CAGGAUCUGGCUGCCAUUUUGCGGCCAUUGUUGUGGCAAGAUGGUGAGGAGUGGGUGCACAUGCCAGGAAAAUUGUGGCUACAAUGAAACGAACAGCCACUUGGCAGAUG
....(((((.(.((((((((((.((.......)).))))))))))...((((((.((.....((((.((...)).))))..(........)..)).))))))).))))). ( -37.10)
>DroEre_CAF1 76737 110 - 1
CAGGAUCUGGCUGAAAUUUUGCGGCCAUUGUUGUGGCAAGAUGGCGAGGAGUGGGUGCACAUGCCAGCAAAAUUGUGGAUACAAUGAAACGAAAAUCCACUUGGCAGCUG
........(((((.((((((((.(((((....)))))....(((((....(((....))).)))))))))))))((((((..............))))))....))))). ( -34.74)
>DroYak_CAF1 79390 110 - 1
CCAUAUCUGGCUGCCAUUUUGCGGCCAUUGUUGUGGCAAGAUGGCGAGGAGUGGGUGCACAUGGCAGCAGAAUUGUGGCUACAAUGAAACGAACAGCCACUUGGCAGAUG
...((((((((((((((..((((.(((((.((.((.(.....).)))).))))).)))).))))))))......((((((..............))))))....)))))) ( -42.14)
>consensus
CAGGAUCUGGCUGCCAUUUUGCGGCCAUUGUUGUGGCAAGAUGGCGAGGAGUGGGUGCACAUGCCAGGAAAAUUGUGGCUACAAUGAAACGAACAGCCACUUGGCAGAUG
......(((((.((((((((((.((.......)).)))))))))).....(((....)))..))))).......((((((..............)))))).......... (-32.14 = -31.86 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:12 2006