Locus 5834

Sequence ID 3L_DroMel_CAF1
Location 15,756,608 – 15,756,744
Length 136
Max. P 0.959499
window9291 window9292

overview

Window 1

Location 15,756,608 – 15,756,728
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.00
Mean single sequence MFE -39.26
Consensus MFE -26.98
Energy contribution -28.98
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -3.17
Structure conservation index 0.69
SVM decision value 1.50
SVM RNA-class probability 0.959499
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15756608 120 - 23771897
CUUAAGCACUUUGACAGCCACUUUCGGUGGGCUCCUUCUGCGGUGGCUCUGCCACUAAUGAGGCUAUCAAAUGGCCGCUUACUUAGGACCCAGCUCGCCUGUCAAAAGUGUCAAAAUUCC
.....((((((((((((((......))((((.((((...((((((((...)))))).....((((((...))))))))......))))))))......))))).)))))))......... ( -41.50)
>DroSec_CAF1 8294 120 - 1
CUUAAGCACUUUGACAGCCACUUUCGGUGGGCUCCUUCUGCGGUGGCUCUGCCACUAAUGAGGCUAUCAAAUGGCCGCUUACUUAGGUCCCAGCUCGCCUGUCAAAAGUGUCAAAAUUCC
.....(((((((((((.........(((((((((((...((((((((...)))))).....((((((...))))))))......)))....)))))))))))).)))))))......... ( -40.00)
>DroSim_CAF1 8538 120 - 1
CUUAAGCACUUUGACAGCCACUUUCGGUGGGCUCCUUCUGCGGUGGCUCUGCCACUAAUGAGGCUAUCAAAUGGCCGCUUACUUAGGACCCAGCUCGCCUGUCAAAAGUGUCAAAAUUCC
.....((((((((((((((......))((((.((((...((((((((...)))))).....((((((...))))))))......))))))))......))))).)))))))......... ( -41.50)
>DroEre_CAF1 8360 120 - 1
CUUGAGCACUUUGACAGCCACUUUCAGUGGGCUCCUUCCGCGGUGGCUCUGCCACUAAUGAGGCUAUCAAAUGGCCGCUUACUUAGGACCCCGCUCGCCUGUCAAAAGUGUCAAAAUUUC
.((((.(((((((((((.(......((((((.((((...((((((((...)))))).....((((((...))))))))......)))).)))))).).))))).))))))))))...... ( -44.40)
>DroAna_CAF1 3013 96 - 1
CUUAACCACUUUGACAGACACUCUCACCCAGAUCCUUCUGCGGUGGCUCAG-CACUAAUGAGGCUAUCAAAUGG-----------------------CCUGUCAAAAGUGUCAAAAUUCC
......(((((((((((......(((((((((....)))).)))))((((.-......))))(((((...))))-----------------------)))))).)))))).......... ( -28.90)
>consensus
CUUAAGCACUUUGACAGCCACUUUCGGUGGGCUCCUUCUGCGGUGGCUCUGCCACUAAUGAGGCUAUCAAAUGGCCGCUUACUUAGGACCCAGCUCGCCUGUCAAAAGUGUCAAAAUUCC
.....((((((((((((.........((((((....((...((((((...))))))...))((((((...))))))................))))))))))).)))))))......... (-26.98 = -28.98 +   2.00)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 15,756,648 – 15,756,744
Length 96
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 98.44
Mean single sequence MFE -32.53
Consensus MFE -32.69
Energy contribution -32.50
Covariance contribution -0.19
Combinations/Pair 1.03
Mean z-score -1.58
Structure conservation index 1.00
SVM decision value -0.00
SVM RNA-class probability 0.532491
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15756648 96 - 23771897
AAGGAAUCGGAGCCUUCUUAAGCACUUUGACAGCCACUUUCGGUGGGCUCCUUCUGCGGUGGCUCUGCCACUAAUGAGGCUAUCAAAUGGCCGCUU
..((((..((((((.......((.........))(((.....)))))))))))))((((((((...)))))).....((((((...)))))))).. ( -31.80)
>DroSec_CAF1 8334 96 - 1
AAGGAAUCGGAGCCUUCUUAAGCACUUUGACAGCCACUUUCGGUGGGCUCCUUCUGCGGUGGCUCUGCCACUAAUGAGGCUAUCAAAUGGCCGCUU
..((((..((((((.......((.........))(((.....)))))))))))))((((((((...)))))).....((((((...)))))))).. ( -31.80)
>DroSim_CAF1 8578 96 - 1
AAGGAAUCGGAGCCUUCUUAAGCACUUUGACAGCCACUUUCGGUGGGCUCCUUCUGCGGUGGCUCUGCCACUAAUGAGGCUAUCAAAUGGCCGCUU
..((((..((((((.......((.........))(((.....)))))))))))))((((((((...)))))).....((((((...)))))))).. ( -31.80)
>DroEre_CAF1 8400 96 - 1
AAGGAAUCGGAGCCUUCUUGAGCACUUUGACAGCCACUUUCAGUGGGCUCCUUCCGCGGUGGCUCUGCCACUAAUGAGGCUAUCAAAUGGCCGCUU
..((((..(((((((.((((.((.........)))).....)).)))))))))))((((((((...)))))).....((((((...)))))))).. ( -34.70)
>consensus
AAGGAAUCGGAGCCUUCUUAAGCACUUUGACAGCCACUUUCGGUGGGCUCCUUCUGCGGUGGCUCUGCCACUAAUGAGGCUAUCAAAUGGCCGCUU
..((((..((((((.......((.........))(((.....)))))))))))))((((((((...)))))).....((((((...)))))))).. (-32.69 = -32.50 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:27 2006