Locus 2952

Sequence ID 2L_DroMel_CAF1
Location 8,483,709 – 8,483,829
Length 120
Max. P 0.805943
window4684 window4685

overview

Window 4

Location 8,483,709 – 8,483,807
Length 98
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 88.64
Mean single sequence MFE -42.33
Consensus MFE -35.35
Energy contribution -35.00
Covariance contribution -0.35
Combinations/Pair 1.33
Mean z-score -2.14
Structure conservation index 0.84
SVM decision value 0.63
SVM RNA-class probability 0.805943
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8483709 98 - 22407834
GCAUGGGAAUGGGAAUUUUGCCCCAGGAUACUUCCCAUGCCGCUCAUAUGUGGCAGUGUCCCGGUGGACUGACCAUGUCCGCUGCCACUCUGCUGAUG
(((((((((((((........))))......)))))))))(((......)))((((.((..((((((((.......))))))))..)).))))..... ( -41.50)
>DroSec_CAF1 23861 98 - 1
GCAUGGGAGUGGGAACCUGGCCCCAGGAUAUUUCCCAUGCCGCUCAUGUGUGGCAGUGUCCCGGUGGACUGGCCAUGUCCGCUGCCACUCUGCUGAUG
(((((((.(((((((((((....))))....)))))))....)))))))..(((((.((..((((((((.......))))))))..)).))))).... ( -46.00)
>DroSim_CAF1 24357 98 - 1
GCAUGGGAGUGGGAACCUGGCCCCAGGAUAUUUCCCAUGCCACUCAUGUGUGGCAGUGUCCCGGUGGACUGGCCAUGUCCACUGCCACUCUGCUGAUG
(((((((.(((((((((((....))))....)))))))....)))))))..(((((.((..((((((((.......))))))))..)).))))).... ( -45.30)
>DroEre_CAF1 31243 98 - 1
GCAUGGGAGUGGGAACCUUGCCCCAGGAUACUUCCCAUGCCGCCCAUGUGCGGCAGUGUGCCGCUGGACUGGCCAUGUCCGCUGCCACUCUGCUGAUG
(((((((.((((((((((......)))....)))))))....))))))).((((((.((((.((.((((.......)))))).).))).))))))... ( -44.40)
>DroYak_CAF1 41475 98 - 1
GCAUGGGAGUGGGAACCUUGCCCCAGGAUACUUCCCAUGCCGCUCAUGUGCGGCAGUGUCCCAGUGGACUGGCCAUGUCCGCUGCCACUCUGCUGAUG
(((((((((((((........))))......)))))))))(((....)))((((((.((..((((((((.......))))))))..)).))))))... ( -44.40)
>DroAna_CAF1 24231 98 - 1
GGAUUGGGAUGAGAACCGUGUCCCAGGAUGUUUCCCAAGCUGCUCAUGUGGGGUAGCGUGCCAGUGGACGGGCCAUGUCCGUUGCCAUUCUGAUGAUG
(((((((........))).))))(((((((........(((((((.....))))))).........(((((((...)))))))..)))))))...... ( -32.40)
>consensus
GCAUGGGAGUGGGAACCUUGCCCCAGGAUACUUCCCAUGCCGCUCAUGUGUGGCAGUGUCCCGGUGGACUGGCCAUGUCCGCUGCCACUCUGCUGAUG
(((((((((((((........))))......)))))))))(((......)))((((.((..((((((((.......))))))))..)).))))..... (-35.35 = -35.00 +  -0.35)

alignment

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secondary structure

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dotplot

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Window 5

Location 8,483,737 – 8,483,829
Length 92
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 70.82
Mean single sequence MFE -36.67
Consensus MFE -13.55
Energy contribution -14.33
Covariance contribution 0.78
Combinations/Pair 1.30
Mean z-score -1.99
Structure conservation index 0.37
SVM decision value 0.55
SVM RNA-class probability 0.778699
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8483737 92 - 22407834
GUU---------GCUGUUGUUGUUGACCGGU--GCAUGGGAAUGGGAAUUUUGCCCCAGGAUACUUCCCAUGCCGCUCAUAUGUGGCAGUGUCCCGGUGGACU
...---------.........(((.(((((.--.((((((((((((........))))......))))).((((((......)))))))))..))))).))). ( -38.30)
>DroPse_CAF1 27779 101 - 1
GGAGUGGGAAUGGGAGUUGGAGUG--CGAGUGCGAGUGCGAGUGGGAACCAUGGCCGAGGAUGUUUCCCAUGCUGCUCAUGUGGGGUAGCGUGCCAGUCGACG
.((.(((.....((...(((..(.--((..(((....)))..)).)..)))...))..(((....)))((((((((((.....))))))))))))).)).... ( -33.60)
>DroSec_CAF1 23889 92 - 1
GUU---------GCUGUUGUUGUUGACCGGU--GCAUGGGAGUGGGAACCUGGCCCCAGGAUAUUUCCCAUGCCGCUCAUGUGUGGCAGUGUCCCGGUGGACU
...---------.........(((.(((((.--.(((....(((((((((((....))))....)))))))(((((......))))).)))..))))).))). ( -41.10)
>DroSim_CAF1 24385 92 - 1
GUU---------GCUGUUGUUGUUGACCGGU--GCAUGGGAGUGGGAACCUGGCCCCAGGAUAUUUCCCAUGCCACUCAUGUGUGGCAGUGUCCCGGUGGACU
...---------.........(((.(((((.--.(((....(((((((((((....))))....)))))))(((((......))))).)))..))))).))). ( -41.50)
>DroAna_CAF1 24259 83 - 1
AGA----------CUG-------GGAGUGG---GGAUUGGGAUGAGAACCGUGUCCCAGGAUGUUUCCCAAGCUGCUCAUGUGGGGUAGCGUGCCAGUGGACG
..(----------(((-------(.(.(((---((((((((((.........))))))).....)))))).(((((((.....))))))).).)))))..... ( -31.90)
>DroPer_CAF1 24677 101 - 1
GGAGUGGGAAUGGGAGUUGGAGUG--CGAGUGCGAGUGCGAGUGGGAACCAUGGCCGAGGAUGUUUCCCAUGCUGCUCAUGUGGGGUAGCGUGCCAGUCGACG
.((.(((.....((...(((..(.--((..(((....)))..)).)..)))...))..(((....)))((((((((((.....))))))))))))).)).... ( -33.60)
>consensus
GGA_________GCUGUUGUUGUGGACCGGU__GCAUGGGAGUGGGAACCUUGCCCCAGGAUAUUUCCCAUGCCGCUCAUGUGGGGCAGCGUCCCAGUGGACG
.....................((..(((((...........(((((((((........))....)))))))(((.(......).)))......)))))..)). (-13.55 = -14.33 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:22 2006