Locus 2898

Sequence ID 2L_DroMel_CAF1
Location 8,324,770 – 8,324,863
Length 93
Max. P 0.958479
window4602 window4603

overview

Window 2

Location 8,324,770 – 8,324,863
Length 93
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 80.56
Mean single sequence MFE -24.92
Consensus MFE -15.68
Energy contribution -15.88
Covariance contribution 0.20
Combinations/Pair 1.14
Mean z-score -1.70
Structure conservation index 0.63
SVM decision value 0.06
SVM RNA-class probability 0.565723
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8324770 93 + 22407834
UACUCUGGAUACUCCAGAUACUCUG--------------GCCUUUUGACUGUGGCGCCAUCCUGACGCCACAAGCUCUCCCA--AUUUCCGCAACGCCCCCAGGCAACA
...(((((.....))))).....((--------------(......(..(((((((.(.....).)))))))..)....)))--...........(((....))).... ( -24.40)
>DroSec_CAF1 4237 93 + 1
UACUCUGGAUACUCCAGAUACUCUG--------------GCCUUUUGACUGUGGCGCCGUCCUGACGCCACAAGCUCUCCCA--AUUUCCCCUACGCCCCCAGGAAGCA
...(((((.....((((.....)))--------------)......(..(((((((.(.....).)))))))..).......--...............)))))..... ( -21.90)
>DroSim_CAF1 4272 93 + 1
UACUCUGGAUACUCCAGAUACUCUG--------------GCCUUUUGACUGUGGCGCCGUCCUGACGCCACGAGCUCUCCCA--AUUUGCCCAACGCCCCCAGGAAACA
...(((((.....)))))......(--------------((.........((((((.(.....).))))))(.((.......--....)).)...)))....(....). ( -23.00)
>DroEre_CAF1 4212 104 + 1
UACUCUAGAUACUCUAGAUACUCCAGAUACUCGUACUCUGCCCUUUG-CUGGGGCGCCAGGACGGCGCCACAAGCUCUCCC----AUUUCCCAGCGCCCCCAGGCAACA
...(((((.....))))).....((((((....)).))))....(((-(((((((((..(((.(((.......))).))).----........)))))))..))))).. ( -31.10)
>DroYak_CAF1 4326 94 + 1
UACUCAAGAUACUCCAGAUACUCUG--------------GCUUUUUG-CUGUGGCGCCGACCUGACGCCACAAGCUUUCCCACCAAUUUCCCAACGCCCCCGGGAAACG
.............((((.....)))--------------)......(-((((((((.(.....).)))))).)))...........((((((.........)))))).. ( -24.20)
>consensus
UACUCUGGAUACUCCAGAUACUCUG______________GCCUUUUGACUGUGGCGCCGUCCUGACGCCACAAGCUCUCCCA__AUUUCCCCAACGCCCCCAGGAAACA
...(((((.....)))))...............................(((((((.(.....).)))))))..............................(....). (-15.68 = -15.88 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 8,324,770 – 8,324,863
Length 93
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 80.56
Mean single sequence MFE -36.56
Consensus MFE -24.86
Energy contribution -24.58
Covariance contribution -0.28
Combinations/Pair 1.20
Mean z-score -2.32
Structure conservation index 0.68
SVM decision value 1.49
SVM RNA-class probability 0.958479
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8324770 93 - 22407834
UGUUGCCUGGGGGCGUUGCGGAAAU--UGGGAGAGCUUGUGGCGUCAGGAUGGCGCCACAGUCAAAAGGC--------------CAGAGUAUCUGGAGUAUCCAGAGUA
....((((...(((...((......--.......)).(((((((((.....))))))))))))...))))--------------.......(((((.....)))))... ( -33.62)
>DroSec_CAF1 4237 93 - 1
UGCUUCCUGGGGGCGUAGGGGAAAU--UGGGAGAGCUUGUGGCGUCAGGACGGCGCCACAGUCAAAAGGC--------------CAGAGUAUCUGGAGUAUCCAGAGUA
.((((((..(...(......)...)--..))).))).(((((((((.....)))))))))(((....)))--------------.......(((((.....)))))... ( -32.50)
>DroSim_CAF1 4272 93 - 1
UGUUUCCUGGGGGCGUUGGGCAAAU--UGGGAGAGCUCGUGGCGUCAGGACGGCGCCACAGUCAAAAGGC--------------CAGAGUAUCUGGAGUAUCCAGAGUA
..(((((..(..((.....))...)--..)))))((((((((((((.....)))))))).(((....)))--------------..)))).(((((.....)))))... ( -38.20)
>DroEre_CAF1 4212 104 - 1
UGUUGCCUGGGGGCGCUGGGAAAU----GGGAGAGCUUGUGGCGCCGUCCUGGCGCCCCAG-CAAAGGGCAGAGUACGAGUAUCUGGAGUAUCUAGAGUAUCUAGAGUA
..((((((.(((((((..(((...----.((...((.....)).)).)))..)))))))..-....)))))).....((...(((((.....)))))...))....... ( -44.10)
>DroYak_CAF1 4326 94 - 1
CGUUUCCCGGGGGCGUUGGGAAAUUGGUGGGAAAGCUUGUGGCGUCAGGUCGGCGCCACAG-CAAAAAGC--------------CAGAGUAUCUGGAGUAUCUUGAGUA
.(((((((((.....)))))))))....((((..(((.((((((((.....))))))))))-)......(--------------(((.....))))....))))..... ( -34.40)
>consensus
UGUUUCCUGGGGGCGUUGGGAAAAU__UGGGAGAGCUUGUGGCGUCAGGACGGCGCCACAGUCAAAAGGC______________CAGAGUAUCUGGAGUAUCCAGAGUA
......((((..((....................(.((((((((((.....)))))))))).).....................(((.....)))..))..)))).... (-24.86 = -24.58 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:02 2006