Locus 7951

Sequence ID 3L_DroMel_CAF1
Location 21,079,815 – 21,079,975
Length 160
Max. P 0.987009
window12968 window12969 window12970

overview

Window 8

Location 21,079,815 – 21,079,935
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.17
Mean single sequence MFE -46.47
Consensus MFE -41.52
Energy contribution -41.68
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -1.51
Structure conservation index 0.89
SVM decision value 1.17
SVM RNA-class probability 0.925318
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21079815 120 + 23771897
AAUGGCUGGCCAAUUACCUCGCCGUGCUGCAGUUUGAUGAUGGUAAUUACGGCCAGGUGACAGCUGGCCGUGAUGGUUCCGCCCACAACGCACCACUUCAGGGGCAGUGGCAGCAUCGCA
...(((..((...((((((.((((((.(((.(((....))).)))..)))))).))))))..))..)))((((((.(.((((((.................))))...)).).)))))). ( -46.53)
>DroSec_CAF1 135165 120 + 1
GAUGGCAGGCCAAUUACCUCGCCGUGCUGCAGUUUGAUGAUGGUAAUUACGGCCAGGUGACAGCUGGCCGUGAUGGUUCCGCCCACAACGCACCACUUCAGGGGCAGUGGCAGCAUCGCA
.((((((((.......))).)))))(((((...........((..(((((((((((.......)))))))))))....))((((.................))))....)))))...... ( -45.93)
>DroSim_CAF1 41281 120 + 1
GAUGGCAGGCCAAUUACCUCGCCGUGCUGCAGUUUAAUGAUGGUAAUUACGGCCAGGUGACAGCUGGCCGUGAUGGUUCCGCCCACAACGCACCACUUCGGGGGCAGUGGGAGCAUCGCA
...((((((.......))).)))(((.(((...........((..(((((((((((.......)))))))))))....)).(((((...((.((.(....))))).))))).))).))). ( -50.10)
>DroEre_CAF1 57373 120 + 1
GAUGGCAGGCCAAUUACCUCGCCGUGCUGCAGUUUGAUGAUGGUAAUUACGGCCAGGUGACAGCUGGCCGUGAUGGUUCCGCCCACAACACACCACUUUAGAGGCAGUGGCAGCAUCGCA
.((((((((.......))).)))))(((((.(((((.((.(((..(((((((((((.......)))))))))))....)))..))))).))..((((........)))))))))...... ( -44.00)
>DroYak_CAF1 29040 120 + 1
GGUGGAAGGCCAAUUACAUUGCCGUGCUGCAGUUUGAUGAUGGUAAUUACGGCCAGGUGACAGCUGGCCGUGAUGGUUCCGCCCACAACACACCACUUUAGAGGAAGUGGCAGCAUCGCA
(((((((.((((((((.(((((......))))).))))..)))).(((((((((((.......)))))))))))..))))))).........(((((((....))))))).......... ( -45.80)
>consensus
GAUGGCAGGCCAAUUACCUCGCCGUGCUGCAGUUUGAUGAUGGUAAUUACGGCCAGGUGACAGCUGGCCGUGAUGGUUCCGCCCACAACGCACCACUUCAGGGGCAGUGGCAGCAUCGCA
..(((....)))........((.(((((((.(((((.((.(((..(((((((((((.......)))))))))))....)))..))))).))..((((........))))))))))).)). (-41.52 = -41.68 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 21,079,815 – 21,079,935
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.17
Mean single sequence MFE -45.12
Consensus MFE -41.30
Energy contribution -41.70
Covariance contribution 0.40
Combinations/Pair 1.05
Mean z-score -1.71
Structure conservation index 0.92
SVM decision value 2.06
SVM RNA-class probability 0.987009
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21079815 120 - 23771897
UGCGAUGCUGCCACUGCCCCUGAAGUGGUGCGUUGUGGGCGGAACCAUCACGGCCAGCUGUCACCUGGCCGUAAUUACCAUCAUCAAACUGCAGCACGGCGAGGUAAUUGGCCAGCCAUU
.(((((((.((((((........))))))))))))).(((((..((...((((((((.......))))))))(((((((.((..(............)..))))))))))))).)))... ( -45.60)
>DroSec_CAF1 135165 120 - 1
UGCGAUGCUGCCACUGCCCCUGAAGUGGUGCGUUGUGGGCGGAACCAUCACGGCCAGCUGUCACCUGGCCGUAAUUACCAUCAUCAAACUGCAGCACGGCGAGGUAAUUGGCCUGCCAUC
.(((((((.((((((........))))))))))))).(((((..((...((((((((.......))))))))(((((((.((..(............)..))))))))))).)))))... ( -47.70)
>DroSim_CAF1 41281 120 - 1
UGCGAUGCUCCCACUGCCCCCGAAGUGGUGCGUUGUGGGCGGAACCAUCACGGCCAGCUGUCACCUGGCCGUAAUUACCAUCAUUAAACUGCAGCACGGCGAGGUAAUUGGCCUGCCAUC
.(((((((..(((((........))))).))))))).(((((..((...((((((((.......))))))))(((((((.((........((......))))))))))))).)))))... ( -45.20)
>DroEre_CAF1 57373 120 - 1
UGCGAUGCUGCCACUGCCUCUAAAGUGGUGUGUUGUGGGCGGAACCAUCACGGCCAGCUGUCACCUGGCCGUAAUUACCAUCAUCAAACUGCAGCACGGCGAGGUAAUUGGCCUGCCAUC
.(((((((.((((((........))))))))))))).(((((..((...((((((((.......))))))))(((((((.((..(............)..))))))))))).)))))... ( -45.10)
>DroYak_CAF1 29040 120 - 1
UGCGAUGCUGCCACUUCCUCUAAAGUGGUGUGUUGUGGGCGGAACCAUCACGGCCAGCUGUCACCUGGCCGUAAUUACCAUCAUCAAACUGCAGCACGGCAAUGUAAUUGGCCUUCCACC
((((.(((((((((((......)))))))((((((..(..(....)...((((((((.......))))))))................)..)))))))))).))))..(((....))).. ( -42.00)
>consensus
UGCGAUGCUGCCACUGCCCCUGAAGUGGUGCGUUGUGGGCGGAACCAUCACGGCCAGCUGUCACCUGGCCGUAAUUACCAUCAUCAAACUGCAGCACGGCGAGGUAAUUGGCCUGCCAUC
.(((((((.((((((........))))))))))))).(((((..((...((((((((.......))))))))(((((((..........(((......))).))))))))).)))))... (-41.30 = -41.70 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 21,079,855 – 21,079,975
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.67
Mean single sequence MFE -42.52
Consensus MFE -41.26
Energy contribution -41.22
Covariance contribution -0.04
Combinations/Pair 1.03
Mean z-score -1.29
Structure conservation index 0.97
SVM decision value 0.91
SVM RNA-class probability 0.880260
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21079855 120 - 23771897
ACCUGGUCUGGUACAUCCUGUUCGUCAUCUUCGUGCCAUAUGCGAUGCUGCCACUGCCCCUGAAGUGGUGCGUUGUGGGCGGAACCAUCACGGCCAGCUGUCACCUGGCCGUAAUUACCA
....(((.((((...(((....((.......)).(((....(((((((.((((((........))))))))))))).))))))))))..((((((((.......))))))))....))). ( -43.90)
>DroSec_CAF1 135205 120 - 1
ACCUGGUCUGGUACAUCCUGUUCGUCAUCUUCGUGCCGUAUGCGAUGCUGCCACUGCCCCUGAAGUGGUGCGUUGUGGGCGGAACCAUCACGGCCAGCUGUCACCUGGCCGUAAUUACCA
.........((((...................((.((((.((((((((.((((((........)))))))))))))).)))).))....((((((((.......))))))))...)))). ( -43.60)
>DroSim_CAF1 41321 120 - 1
ACCUGGUCUGGUACAUCCUGUUCGUCAUCUUCGUGCCGUAUGCGAUGCUCCCACUGCCCCCGAAGUGGUGCGUUGUGGGCGGAACCAUCACGGCCAGCUGUCACCUGGCCGUAAUUACCA
.........((((...................((.((((.((((((((..(((((........))))).)))))))).)))).))....((((((((.......))))))))...)))). ( -41.80)
>DroEre_CAF1 57413 120 - 1
ACCUGGUCUGGUACAUCCUGUUCGUCAUCUUCGUGCCAUAUGCGAUGCUGCCACUGCCUCUAAAGUGGUGUGUUGUGGGCGGAACCAUCACGGCCAGCUGUCACCUGGCCGUAAUUACCA
....(((.((((...(((....((.......)).(((....(((((((.((((((........))))))))))))).))))))))))..((((((((.......))))))))....))). ( -41.30)
>DroYak_CAF1 29080 120 - 1
ACCUGGUUUGGUACAUCCUGUUCGUCAUCUUCGUGCCGUAUGCGAUGCUGCCACUUCCUCUAAAGUGGUGUGUUGUGGGCGGAACCAUCACGGCCAGCUGUCACCUGGCCGUAAUUACCA
...(((((((((((....((.....)).....)))))((.((((((((.(((((((......))))))))))))))).)).))))))..((((((((.......))))))))........ ( -42.00)
>consensus
ACCUGGUCUGGUACAUCCUGUUCGUCAUCUUCGUGCCGUAUGCGAUGCUGCCACUGCCCCUGAAGUGGUGCGUUGUGGGCGGAACCAUCACGGCCAGCUGUCACCUGGCCGUAAUUACCA
....(((.((((...(((....((.......)).(((....(((((((.((((((........))))))))))))).))))))))))..((((((((.......))))))))....))). (-41.26 = -41.22 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:50 2006