Locus 3219

Sequence ID	3L_DroMel_CAF1
Location	9,397,565 – 9,397,670
Length	105
Max. P	0.797927

overview

Window 3

Location	9,397,565 – 9,397,670
Length	105
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	93.33
Mean single sequence MFE	-40.73
Consensus MFE	-33.77
Energy contribution	-33.38
Covariance contribution	-0.39
Combinations/Pair	1.17
Mean z-score	-2.10
Structure conservation index	0.83
SVM decision value	0.49
SVM RNA-class probability	0.758181
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9397565 105 + 23771897
CAGCUGAAUUGCAAUGGCAAUGGCACCACCGGUGGCGCGGCGAAAACCACUGUGGCCUCGGCCAUAACACCGCCCAAGCAGCCCCAGUUGGCGGCCAAGGUCAUC
..((......)).(((((..((((.((((.((.(((((((((........((((((....))))))....))))...)).))))).).)))..))))..))))). ( -39.10)
>DroSec_CAF1 20305 105 + 1
CAGCUGAAUUGCAAUGGCAAUGGCACCACCGAUGGCGCGGCCAAAACCACUGUGGCCUCGGCCAUAACACCGCCCAAGCAGCCCCAGCUGGCGGCCAAGGUCAUC
((((((..((((...(((..((((..(.((...)).)..)))).......((((((....)))))).....)))...))))...))))))..(((....)))... ( -38.50)
>DroSim_CAF1 19845 105 + 1
CAGCUGAAUUGCAAUGGCAAUGGCACCACCGGUGGCGCGGCCAAAACCACUGUGGCCUCGGCCAUAACACCGCCCAAGCAGCCCCAGCUGGCGGCCAAGGUCAUC
((((((..((((..((((..((.((((...)))).))..)))).......((((((....))))))...........))))...))))))..(((....)))... ( -39.70)
>DroEre_CAF1 21612 105 + 1
CAGCUGAAUUGCAAUGGCAAUGGCACCACCGGUGGGGCUGCCAAAACCACUGUGGCCUCGGCCAUAACACCGCCCAAGCAGCCCCAAUUGGCGGCCAAGGUCAUC
..((......)).(((((..((((....(((((((((((((.........((((((....))))))...........)))))))).)))))..))))..))))). ( -44.25)
>DroYak_CAF1 18399 105 + 1
CAGCUGAAUUGCAAUGGCAAUGGCACCACCGGUGGGGCGGCCAAAACCACUGUGGCCUCGGCCAUAACGCCGCCCAAGCAGCCCCAAUUGGCGGCCAAGGUCAUC
..((......)).(((((..((((....(((((((((((((((.........))))).((((......))))........))))).)))))..))))..))))). ( -43.00)
>DroAna_CAF1 21434 105 + 1
CAGCUGAACUGUAAUGGUAAUGGCACUUCGGGAGGAGCUGCCAAGACCACUGUGGCCUCGGCCAUAACACCGCCGAAACAACCCCAGUUGGCGGCCAAGGUCAUC
..(((((.(..((.((((..(((((((((....)))).)))))..)))).))..)..)))))......(((((((...((((....)))).))))...))).... ( -39.80)
>consensus
CAGCUGAAUUGCAAUGGCAAUGGCACCACCGGUGGCGCGGCCAAAACCACUGUGGCCUCGGCCAUAACACCGCCCAAGCAGCCCCAGUUGGCGGCCAAGGUCAUC
((((((..((((...(((..((((.(((....)))....)))).......((((((....)))))).....)))...))))...))))))..(((....)))... (-33.77 = -33.38 +  -0.39)

alignment

secondary structure

dotplot

Window 4

Location	9,397,565 – 9,397,670
Length	105
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	93.33
Mean single sequence MFE	-46.70
Consensus MFE	-40.10
Energy contribution	-39.77
Covariance contribution	-0.33
Combinations/Pair	1.16
Mean z-score	-1.77
Structure conservation index	0.86
SVM decision value	0.61
SVM RNA-class probability	0.797927
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9397565 105 - 23771897
GAUGACCUUGGCCGCCAACUGGGGCUGCUUGGGCGGUGUUAUGGCCGAGGCCACAGUGGUUUUCGCCGCGCCACCGGUGGUGCCAUUGCCAUUGCAAUUCAGCUG
..(((....((((.((....))))))((...(((((((....(((.((((((.....)))))).)))((((((....)))))))))))))...))...))).... ( -43.60)
>DroSec_CAF1 20305 105 - 1
GAUGACCUUGGCCGCCAGCUGGGGCUGCUUGGGCGGUGUUAUGGCCGAGGCCACAGUGGUUUUGGCCGCGCCAUCGGUGGUGCCAUUGCCAUUGCAAUUCAGCUG
...............((((((((..(((...(((((((....((((((((((.....))))))))))((((((....)))))))))))))...))).)))))))) ( -52.00)
>DroSim_CAF1 19845 105 - 1
GAUGACCUUGGCCGCCAGCUGGGGCUGCUUGGGCGGUGUUAUGGCCGAGGCCACAGUGGUUUUGGCCGCGCCACCGGUGGUGCCAUUGCCAUUGCAAUUCAGCUG
...............((((((((..(((...(((((((....((((((((((.....))))))))))((((((....)))))))))))))...))).)))))))) ( -52.90)
>DroEre_CAF1 21612 105 - 1
GAUGACCUUGGCCGCCAAUUGGGGCUGCUUGGGCGGUGUUAUGGCCGAGGCCACAGUGGUUUUGGCAGCCCCACCGGUGGUGCCAUUGCCAUUGCAAUUCAGCUG
..((.(((((((((((....)).(((((....)))))....))))))))).))(((((((..(((((.(((....)).).)))))..)))))))........... ( -46.50)
>DroYak_CAF1 18399 105 - 1
GAUGACCUUGGCCGCCAAUUGGGGCUGCUUGGGCGGCGUUAUGGCCGAGGCCACAGUGGUUUUGGCCGCCCCACCGGUGGUGCCAUUGCCAUUGCAAUUCAGCUG
..((.(((((((((((....)).(((((....)))))....))))))))).))(((((((..((((.(((((...)).)))))))..)))))))........... ( -47.80)
>DroAna_CAF1 21434 105 - 1
GAUGACCUUGGCCGCCAACUGGGGUUGUUUCGGCGGUGUUAUGGCCGAGGCCACAGUGGUCUUGGCAGCUCCUCCCGAAGUGCCAUUACCAUUACAGUUCAGCUG
((((....(((((..((((....)))).(((((.((.((....(((((((((.....))))))))).)).))..)))))).))))....)))).(((.....))) ( -37.40)
>consensus
GAUGACCUUGGCCGCCAACUGGGGCUGCUUGGGCGGUGUUAUGGCCGAGGCCACAGUGGUUUUGGCCGCGCCACCGGUGGUGCCAUUGCCAUUGCAAUUCAGCUG
..((.(((((((((((....)).(((((....)))))....))))))))).))(((((((..((((....(((....))).))))..)))))))........... (-40.10 = -39.77 +  -0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:22 2006