Locus 8142

Sequence ID 3L_DroMel_CAF1
Location 21,466,699 – 21,466,837
Length 138
Max. P 0.975964
window13300 window13301

overview

Window 0

Location 21,466,699 – 21,466,807
Length 108
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 96.30
Mean single sequence MFE -52.63
Consensus MFE -50.33
Energy contribution -50.33
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.71
Structure conservation index 0.96
SVM decision value 1.76
SVM RNA-class probability 0.975964
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21466699 108 + 23771897
GGGCGUUCGCCCAGUUCCUCUGCUGACUGGAGAUGCUGGCGCUGCGGCUGCCAAUGGUGCUGCUGCUGCUUGUACUAGGCUUCGGCAGCACGUCGGUGGCCACCUGCU
(((((...(((((((..((((.......))))..))))).)))))(((..((.(((.((((((((..(((((...)))))..))))))))))).))..))).)).... ( -51.50)
>DroSec_CAF1 3337 108 + 1
GGGCGUUCGCCCAGUUCCUCUGCUGAGUGGAGAUGCUGGCGCUCUGGCUGCCACUGGUGCUGCUGCUGCUUGUACUAGGCUUCGGCAGCACAUCGGUGGCCACCUGUU
(((((.....(((((..(((..(...)..)))..))))))))))((((..((....(((((((((..(((((...)))))..)))))))))...))..))))...... ( -53.20)
>DroSim_CAF1 1284 108 + 1
GGGCGUUCGCCCAGUUCCUCUGCUGAGUGGAGAUGCUGGCGCUCUGGCUGCCACUGGUGCUGCUGCUGCUUGUACUAGGCUUCGGCAGCACGUCGGUGGCCACCUGUU
(((((.....(((((..(((..(...)..)))..)))))))))).((..((((((((((((((((..(((((...)))))..)))))))))..)))))))..)).... ( -53.20)
>consensus
GGGCGUUCGCCCAGUUCCUCUGCUGAGUGGAGAUGCUGGCGCUCUGGCUGCCACUGGUGCUGCUGCUGCUUGUACUAGGCUUCGGCAGCACGUCGGUGGCCACCUGUU
(((.....(((((((..(((((.....)))))..))))).))...(((..((....(((((((((..(((((...)))))..)))))))))...))..))).)))... (-50.33 = -50.33 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 21,466,739 – 21,466,837
Length 98
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 90.65
Mean single sequence MFE -44.52
Consensus MFE -41.46
Energy contribution -41.77
Covariance contribution 0.31
Combinations/Pair 1.18
Mean z-score -1.34
Structure conservation index 0.93
SVM decision value 0.19
SVM RNA-class probability 0.624671
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21466739 98 + 23771897
GCUGCGGCUGCCAAUGGUGCUGCUGCUGCUUGUACUAGGCUUCGGCAGCACGUCGGUGGCCACCUGCUCCUCGCACUCGGGACGACCGCGGCUCAGGU
((((((((..((.(((.((((((((..(((((...)))))..))))))))))).))..)))...(((.....)))...((.....)))))))...... ( -45.70)
>DroSec_CAF1 3377 98 + 1
GCUCUGGCUGCCACUGGUGCUGCUGCUGCUUGUACUAGGCUUCGGCAGCACAUCGGUGGCCACCUGUUCCUCGCACUCGGGAUGACCGCGGCUCAGGU
.....(((..((....(((((((((..(((((...)))))..)))))))))...))..)))(((((......((.(.(((.....))).))).))))) ( -44.80)
>DroSim_CAF1 1324 98 + 1
GCUCUGGCUGCCACUGGUGCUGCUGCUGCUUGUACUAGGCUUCGGCAGCACGUCGGUGGCCACCUGUUCCUCGCACUCGGGAUGACCGCGGCUCAGGU
.....(((..((((..(((((((((..(((((...)))))..))))))))))).))..)))(((((......((.(.(((.....))).))).))))) ( -44.10)
>DroYak_CAF1 1370 98 + 1
GCUGUGGGUGCCGCUGCUGCUGCUGGUGCUCGUACUGGGCUUUGGGAGCACAUCGGUGGCCACCUGCUGCUCGCACUCGGGGCGACCGCGGCUCAAGU
((.(..((((((((((.((((.(..(.((((.....)))).)..).))))...)))))).))))..).))..((.(.(((.....))).)))...... ( -43.50)
>consensus
GCUCUGGCUGCCACUGGUGCUGCUGCUGCUUGUACUAGGCUUCGGCAGCACAUCGGUGGCCACCUGCUCCUCGCACUCGGGACGACCGCGGCUCAGGU
(((((((..((((((((((((((((..(((((...)))))..)))))))))..))))))).....(((((........)))))..)))))))...... (-41.46 = -41.77 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:20 2006