Locus 1963

Sequence ID 2R_DroMel_CAF1
Location 7,410,009 – 7,410,129
Length 120
Max. P 0.848317
window3246

overview

Window 6

Location 7,410,009 – 7,410,129
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 93.78
Mean single sequence MFE -40.50
Consensus MFE -37.69
Energy contribution -36.55
Covariance contribution -1.14
Combinations/Pair 1.18
Mean z-score -1.21
Structure conservation index 0.93
SVM decision value 0.78
SVM RNA-class probability 0.848317
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7410009 120 + 20766785
UACAUCAAGAAGAUCGGCUACAACCCAGCCGCCGUUGCCUUCGUGCCCAUUUCCGGAUGGCACGGCGACAACAUGUUGGAACCCUCUACCAACAUGCCCUGGUUCAAGGGAUGGAAGGUG
..((((........(((((.......)))))((((((((...(((((.(((....))))))))))))))..((((((((.........))))))))((((......))))..))..)))) ( -42.70)
>DroVir_CAF1 24350 120 + 1
UACAUCAAGAAGAUCGGCUACAACCCGGCGGCCGUUGCCUUCGUGCCCAUCUCCGGAUGGCACGGCGACAACAUGUUGGAACCAUCGACCAACAUGCCAUGGUUUAAGGGAUGGAAGGUG
..((((....((((((((..(......)..)))((((((...(((((.(((....))))))))))))))..((((((((.........))))))))....)))))....))))....... ( -42.10)
>DroGri_CAF1 24478 120 + 1
UACAUCAAGAAGAUCGGCUACAACCCGGCGGCUGUUGCCUUCGUGCCCAUUUCCGGAUGGCACGGUGACAACAUGUUGGAACCAUCGACCAACAUGCCCUGGUUCAAGGGAUGGAAGGUG
..............((((..(......)..))))..(((((((((((.(((....))))))))(....)..((((((((.........))))))))((((......))))...)))))). ( -39.00)
>DroWil_CAF1 27988 120 + 1
UACAUCAAGAAGAUCGGUUACAACCCAGCCGCUGUUGCCUUCGUGCCAAUCUCCGGAUGGCACGGCGACAACAUGUUGGAACCAUCAACCAACAUGCCAUGGUUCAAGGGAUGGAAGGUU
...........((((.....((.((((((((.(((((((...((((((.((....))))))))))))))).((((((((.........))))))))...)))))...))).))...)))) ( -39.60)
>DroMoj_CAF1 24309 120 + 1
UACAUCAAGAAGAUCGGCUACAACCCGGCGGCUGUUGCCUUUGUGCCCAUCUCCGGAUGGCACGGCGACAACAUGUUGGAACCAUCGACCAACAUGCCCUGGUUCAAGGGAUGGAAGGUG
..((((..(((....(....)...((((.((((((((((...(((((.(((....)))))))))))))))..(((((((.........)))))))))))))))))....))))....... ( -40.80)
>DroAna_CAF1 24999 120 + 1
UACAUCAAGAAGAUCGGUUACAACCCAGCUGCCGUCGCUUUCGUGCCCAUUUCCGGAUGGCACGGCGACAACAUGUUGGAACCCUCCACCAACAUGCCCUGGUUCAAGGGAUGGAAGGUU
...........((((.....((.(((....((((((((...((((((.(((....))))))))))))))..((((((((.........))))))))....)))....))).))...)))) ( -38.80)
>consensus
UACAUCAAGAAGAUCGGCUACAACCCAGCGGCCGUUGCCUUCGUGCCCAUCUCCGGAUGGCACGGCGACAACAUGUUGGAACCAUCGACCAACAUGCCCUGGUUCAAGGGAUGGAAGGUG
..((((.....(((((((..(......)..)))((((((...(((((.(((....))))))))))))))..((((((((.........))))))))....)))).....))))....... (-37.69 = -36.55 +  -1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:30 2006