Locus 3894

Sequence ID 2L_DroMel_CAF1
Location 11,396,271 – 11,396,362
Length 91
Max. P 0.945017
window6126 window6127

overview

Window 6

Location 11,396,271 – 11,396,362
Length 91
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 85.27
Mean single sequence MFE -37.62
Consensus MFE -29.09
Energy contribution -29.20
Covariance contribution 0.11
Combinations/Pair 1.17
Mean z-score -2.38
Structure conservation index 0.77
SVM decision value 0.42
SVM RNA-class probability 0.727615
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11396271 91 + 22407834
AAAUGUGCCCCCGAAAUGGUUUCAUAAAUGGCACUGCGCACGCCUCCGCGAAAAGGGGCGGCAGUGGGAAGGGGCAGAG--------GUGGGGGGAUGG
....((.((((((.....((..(........((((((...((((.((.......))))))))))))....)..))....--------.)))))).)).. ( -34.60)
>DroSec_CAF1 113221 91 + 1
AAAUGUGCCCCCGAAAUGGUUUCAUAAAUGGCACUGCGCACGCCUCCGCGAAAAGGGGCGGCAGUGGGAGGGGGCAGAG--------GCGGGGGGAUGG
....((.((((((.....((..(.....(..((((((...((((.((.......))))))))))))..).)..))....--------.)))))).)).. ( -37.40)
>DroSim_CAF1 120618 91 + 1
AAAUGUGCCCCCGAAAUGGUUUCAUAAAUGGCACUGCGCACGCCUCCGCGAAAAGGGGCGGCAGUGGCAGGGGGCAGAG--------GCGGGGGGAUGG
....((.((((((.....((..(.....((.((((((...((((.((.......)))))))))))).)).)..))....--------.)))))).)).. ( -42.70)
>DroEre_CAF1 121206 90 + 1
AAAUGUGCCCCCGAAAUGGUUUCAUAAAUGGCACUGCGCACGCCUCUGCGAAAAGGGGCGGCAGUGGGAGGGGCCGCGG--------G-AGGGGAAAGA
.......((((((....(((..(........((((((...(((((((......)))))))))))))...)..))).)))--------)-.))....... ( -34.80)
>DroYak_CAF1 117089 91 + 1
AAAUGUGCCCCCGAAAUGGUUUCAUAAAUGGCACUGCGCACGCCUCCGCGAAAAGGGGCGGCAGUGGGAGGGGCAGGGG--------GCAGGGGGUAGG
.....(((((((......((..(.....((.(.((.(.((((((.((.(.....).)).))).))).).))).)).)..--------)).))))))).. ( -35.80)
>DroAna_CAF1 101267 98 + 1
AAAUGUGCCCCCGAAAUGGUUUCAUAAAUGGCUCUGCGCACGCCUUGUCCAGGAGGGG-GGCAAGGGUCGGGGGCAUGGUGUACACACCAGGUGUAUGG
....((((((((((................((.....))...((((((((.......)-))))))).))))))))))((((....)))).......... ( -40.40)
>consensus
AAAUGUGCCCCCGAAAUGGUUUCAUAAAUGGCACUGCGCACGCCUCCGCGAAAAGGGGCGGCAGUGGGAGGGGGCAGAG________GCAGGGGGAUGG
...(.((((((((((.....)))........((((((...((((((........))))))))))))...))))))).)..................... (-29.09 = -29.20 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 11,396,271 – 11,396,362
Length 91
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 85.27
Mean single sequence MFE -32.23
Consensus MFE -26.71
Energy contribution -27.43
Covariance contribution 0.72
Combinations/Pair 1.09
Mean z-score -2.96
Structure conservation index 0.83
SVM decision value 1.35
SVM RNA-class probability 0.945017
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11396271 91 - 22407834
CCAUCCCCCCAC--------CUCUGCCCCUUCCCACUGCCGCCCCUUUUCGCGGAGGCGUGCGCAGUGCCAUUUAUGAAACCAUUUCGGGGGCACAUUU
............--------...(((((((...(((((((((.((((......)))).))).))))))........(((.....))))))))))..... ( -30.00)
>DroSec_CAF1 113221 91 - 1
CCAUCCCCCCGC--------CUCUGCCCCCUCCCACUGCCGCCCCUUUUCGCGGAGGCGUGCGCAGUGCCAUUUAUGAAACCAUUUCGGGGGCACAUUU
............--------...(((((((...(((((((((.((((......)))).))).))))))........(((.....))))))))))..... ( -32.80)
>DroSim_CAF1 120618 91 - 1
CCAUCCCCCCGC--------CUCUGCCCCCUGCCACUGCCGCCCCUUUUCGCGGAGGCGUGCGCAGUGCCAUUUAUGAAACCAUUUCGGGGGCACAUUU
............--------...(((((((((.(((((((((.((((......)))).))).)))))).)).....(((.....))))))))))..... ( -34.00)
>DroEre_CAF1 121206 90 - 1
UCUUUCCCCU-C--------CCGCGGCCCCUCCCACUGCCGCCCCUUUUCGCAGAGGCGUGCGCAGUGCCAUUUAUGAAACCAUUUCGGGGGCACAUUU
..........-.--------.....((((((..(((((((((.((((......)))).))).))))))........(((.....)))))))))...... ( -29.50)
>DroYak_CAF1 117089 91 - 1
CCUACCCCCUGC--------CCCCUGCCCCUCCCACUGCCGCCCCUUUUCGCGGAGGCGUGCGCAGUGCCAUUUAUGAAACCAUUUCGGGGGCACAUUU
.........(((--------((((.........(((((((((.((((......)))).))).))))))........(((.....))))))))))..... ( -32.80)
>DroAna_CAF1 101267 98 - 1
CCAUACACCUGGUGUGUACACCAUGCCCCCGACCCUUGCC-CCCCUCCUGGACAAGGCGUGCGCAGAGCCAUUUAUGAAACCAUUUCGGGGGCACAUUU
.........(((((....)))))(((((((((.(((((((-........)).))))).(.((.....)))...............)))))))))..... ( -34.30)
>consensus
CCAUCCCCCCGC________CCCUGCCCCCUCCCACUGCCGCCCCUUUUCGCGGAGGCGUGCGCAGUGCCAUUUAUGAAACCAUUUCGGGGGCACAUUU
........................((((((...(((((((((.((((......)))).))).))))))........(((.....)))))))))...... (-26.71 = -27.43 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:57 2006