Locus 3391

Sequence ID 3L_DroMel_CAF1
Location 9,945,731 – 9,945,871
Length 140
Max. P 0.912190
window5302 window5303

overview

Window 2

Location 9,945,731 – 9,945,831
Length 100
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 86.95
Mean single sequence MFE -36.32
Consensus MFE -30.11
Energy contribution -29.92
Covariance contribution -0.19
Combinations/Pair 1.23
Mean z-score -2.14
Structure conservation index 0.83
SVM decision value 0.58
SVM RNA-class probability 0.789484
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9945731 100 - 23771897
GCAAGGCCAAGGCGUUUUCCAUCAAUGCCCUCGAUCGAGGAAACAAAUCCGGAAAC------------GAAUCCGGACAGGUGAUGAACUACCGCCAGGGUCGCAGCAUUGU
((..((((..((((.....(((((.((.((((....)))).......((((((...------------...))))))))..)))))......))))..))))...))..... ( -35.70)
>DroSec_CAF1 97713 100 - 1
GCAAGGCCAAGGCGUUUUCCAUCAACGCUCUCGAUCGAGGAAACAAAUCCGGAAAC------------GGAUCCGGACAGGUGAUGAACUACCGCCAGGGUCGCAGCAUUGA
((..((((..((((.....(((((....(((.((((..(....).....((....)------------))))).)))....)))))......))))..))))...))..... ( -33.90)
>DroSim_CAF1 101255 100 - 1
GCAAGGCCAAGGCGUUUUCCAUCAACGCCCUCGAUCGAGGAAACAAAUCCGGAAAC------------GGAUCCGGACAGGUGAUGAACUACCGCCAGGGUCGCAGCAUUGA
((..((((..(((....(((........((((....))))......(((((....)------------))))..)))..((((......)))))))..))))...))..... ( -36.30)
>DroEre_CAF1 100507 106 - 1
GCAAAGCCAAGGCGUUUUCCAUCAACGCCCUCGAUCGAGGAAACAAAUCCGGAAAC------GUCUCCGGAUCCGGACAGGUGAUGAACUACCGCCACGGCCGCAGCAUUGA
((...(((..((((.....(((((.(..((((....)))).......((((((..(------(....))..))))))..).)))))......))))..))).))........ ( -34.80)
>DroYak_CAF1 107531 106 - 1
GCAAGGCCAAGGCGUUUUCCAUCAACGCCCUUGAUCGAGGAAACAAAUCCGGAAAC------GUAUCCGGAUCCGGACAGGUGAUGAACUACCGCCACGGCCGCAGCAUUGA
((..((((..(((((((((((((((.....))))).).))))))...((((((..(------(....))..))))))..((((......)))))))..))))...))..... ( -39.00)
>DroAna_CAF1 94510 112 - 1
CCAAGGCCAAAUCGUACUCGGUCAGCGCUCUCGAAAGAGGAAAUAAAUCCGGAAACAGGCCCGGAUCCGGAUCUGGACAGGUGAUGAACUAUCGUCACGGCCGCAGCAUUGA
....((((........((.(..(((...((((....))))......(((((((..(......)..))))))))))..)))(((((((....))))))))))).......... ( -38.20)
>consensus
GCAAGGCCAAGGCGUUUUCCAUCAACGCCCUCGAUCGAGGAAACAAAUCCGGAAAC____________GGAUCCGGACAGGUGAUGAACUACCGCCACGGCCGCAGCAUUGA
((..((((..((((.....(((((.(..((((....)))).......((((((..................))))))..).)))))......))))..))))...))..... (-30.11 = -29.92 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 9,945,763 – 9,945,871
Length 108
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 86.70
Mean single sequence MFE -42.36
Consensus MFE -34.42
Energy contribution -34.87
Covariance contribution 0.45
Combinations/Pair 1.18
Mean z-score -2.88
Structure conservation index 0.81
SVM decision value 1.08
SVM RNA-class probability 0.912190
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9945763 108 - 23771897
GAUGCGAGCAAAGAGUUGCGGGGAACUGCCUUGGAUCAGAGCAAGGCCAAGGCGUUUUCCAUCAAUGCCCUCGAUCGAGGAAACAAAUCCGGAAAC------------GAAUCCGGACAG
...(((.((((....))))((..(((.(((((((.((.......))))))))))))..)).....)))((((....)))).......((((((...------------...))))))... ( -40.60)
>DroSec_CAF1 97745 108 - 1
GAUGCGAGCAAAGAGUUGCGGGGAACUGCCUUGGAUCAGAGCAAGGCCAAGGCGUUUUCCAUCAACGCUCUCGAUCGAGGAAACAAAUCCGGAAAC------------GGAUCCGGACAG
(((.((((...((.((((.((..(((.(((((((.((.......))))))))))))..))..)))).)))))))))..(....)...((((((...------------...))))))... ( -42.30)
>DroSim_CAF1 101287 108 - 1
GAUGCGAGCAAAGAGUUGCGGGGAACUGCCUUGGAUCAGAGCAAGGCCAAGGCGUUUUCCAUCAACGCCCUCGAUCGAGGAAACAAAUCCGGAAAC------------GGAUCCGGACAG
...(((.((((....))))((..(((.(((((((.((.......))))))))))))..)).....)))((((....)))).......((((((...------------...))))))... ( -42.60)
>DroEre_CAF1 100539 114 - 1
GAUGCGAGCAAGGAGUUGCGGGGAACUGCCUUGGAUCAGAGCAAAGCCAAGGCGUUUUCCAUCAACGCCCUCGAUCGAGGAAACAAAUCCGGAAAC------GUCUCCGGAUCCGGACAG
(((.((((...((.((((.((..(((.(((((((............))))))))))..))..)))).)))))))))..(....)...((((((..(------(....))..))))))... ( -45.60)
>DroYak_CAF1 107563 114 - 1
GAUGCGAGCAAGGAGCUGCGGGGAACUGCCUUGGAUCAGAGCAAGGCCAAGGCGUUUUCCAUCAACGCCCUUGAUCGAGGAAACAAAUCCGGAAAC------GUAUCCGGAUCCGGACAG
....(((.(((((.((((.((..(((.(((((((.((.......))))))))))))..))..))..))))))).))).(....)...((((((..(------(....))..))))))... ( -45.80)
>DroAna_CAF1 94542 120 - 1
GAUGCCAGCAAAGAAUUGAAGGGCACGGCAUUGGACCAGACCAAGGCCAAAUCGUACUCGGUCAGCGCUCUCGAAAGAGGAAAUAAAUCCGGAAACAGGCCCGGAUCCGGAUCUGGACAG
((((((..(((....)))...)))..(((.((((......)))).)))..)))((..((((.......((((....))))........))))...(((..(((....)))..))).)).. ( -37.26)
>consensus
GAUGCGAGCAAAGAGUUGCGGGGAACUGCCUUGGAUCAGAGCAAGGCCAAGGCGUUUUCCAUCAACGCCCUCGAUCGAGGAAACAAAUCCGGAAAC____________GGAUCCGGACAG
...(((.((((....))))(((((((.(((((((.((.......)))))))))))))))).....)))((((....)))).......((((((..................))))))... (-34.42 = -34.87 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:01 2006