Locus 1041

Sequence ID X_DroMel_CAF1
Location 3,025,225 – 3,025,345
Length 120
Max. P 0.996812
window1690 window1691

overview

Window 0

Location 3,025,225 – 3,025,345
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.75
Mean single sequence MFE -48.92
Consensus MFE -43.64
Energy contribution -43.48
Covariance contribution -0.16
Combinations/Pair 1.15
Mean z-score -2.05
Structure conservation index 0.89
SVM decision value 2.75
SVM RNA-class probability 0.996812
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3025225 120 + 22224390
AGCAUGACACCGCAGGCAAUGAUCGGAUCCCCGCCGCCGGGUCAACAGCAGCCGCAGUUGAUCACACAGCCGACGGUCAUUUCCGCCGGAAAUGGUGGCAACAAUGGCAAUGGCAAUGCC
.((((....(((..(.((.((...((....))((((((((((((((.((....)).)))))))......(((.(((......))).)))...)))))))..)).)).)..)))..)))). ( -42.80)
>DroSec_CAF1 5644 120 + 1
AGCAUGACACCGCAGGCCAUGAUCGGAUCCCCGCCGCCGGGUCAGCAGCAGCCGCAGCUGAUCACACAGCCGACGGUCAUUUCCGCCGGAAACGGCGGCAACAAUGGCAACGGCAACGCC
.((........))..(((((....((....))((((((((((((((.((....)).)))))))......(((.(((......))).)))...)))))))....)))))..((....)).. ( -51.10)
>DroSim_CAF1 625 120 + 1
AGCAUGACGCCGCAGGCCAUGAUCGGAUCCCCGCCGCCGGGUCAGCAGCAGCCGCAGCUGAUCACACAGCCGACGGUCAUUUCCGCCGGAAACGGCGGCAACAAUGGCAACGGCAACGCC
........((((...(((((....((....))((((((((((((((.((....)).)))))))......(((.(((......))).)))...)))))))....)))))..))))...... ( -55.50)
>DroEre_CAF1 5662 120 + 1
AGCAUGACACCGCAGGCCAUGAUCGGAUCCCCGCCGCCGGGCCAACAGCAGCCGCAGUUGAUCACCCAGCCGACGGUCAUAUCCGCUGGAAACGGUGGCAACAAUGGCAACGGCAAUGCC
.((((....(((...(((((....((....))((((((((..((((.((....)).))))..)..(((((.((........)).)))))...)))))))....)))))..)))..)))). ( -47.50)
>DroYak_CAF1 5590 120 + 1
AGCAUGACACCGCAGGCGAUGAUCGGUUCACCGCCGCCUGGCCAGCAGCAGCCGCAGCUGAUCACCCAGCCGACGGUCAUAUCCGCCGGCAAUGGCGGCAAUAAUGGCAACGGCAACGCC
.((........)).((((.((.((((....))((((((((..((((.((....)).))))..))....((((.(((......))).))))...))))))......(....))))).)))) ( -47.70)
>consensus
AGCAUGACACCGCAGGCCAUGAUCGGAUCCCCGCCGCCGGGUCAGCAGCAGCCGCAGCUGAUCACACAGCCGACGGUCAUUUCCGCCGGAAACGGCGGCAACAAUGGCAACGGCAACGCC
.((......(((...(((((....((....))((((((((((((((.((....)).)))))))......(((.(((......))).)))...)))))))....)))))..)))....)). (-43.64 = -43.48 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 1

Location 3,025,225 – 3,025,345
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.75
Mean single sequence MFE -56.28
Consensus MFE -48.88
Energy contribution -48.80
Covariance contribution -0.08
Combinations/Pair 1.12
Mean z-score -1.71
Structure conservation index 0.87
SVM decision value 1.53
SVM RNA-class probability 0.961617
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3025225 120 - 22224390
GGCAUUGCCAUUGCCAUUGUUGCCACCAUUUCCGGCGGAAAUGACCGUCGGCUGUGUGAUCAACUGCGGCUGCUGUUGACCCGGCGGCGGGGAUCCGAUCAUUGCCUGCGGUGUCAUGCU
((((.......))))......((...(((((((...)))))))(((((.(((...((((((.......(((((((......)))))))((....)))))))).))).))))).....)). ( -46.30)
>DroSec_CAF1 5644 120 - 1
GGCGUUGCCGUUGCCAUUGUUGCCGCCGUUUCCGGCGGAAAUGACCGUCGGCUGUGUGAUCAGCUGCGGCUGCUGCUGACCCGGCGGCGGGGAUCCGAUCAUGGCCUGCGGUGUCAUGCU
(((((((((((.(((((.((((((((((..((.(((((....(.(((.((((((......))))))))))..)))))))..)))))))((....))))).)))))..))))))..))))) ( -59.20)
>DroSim_CAF1 625 120 - 1
GGCGUUGCCGUUGCCAUUGUUGCCGCCGUUUCCGGCGGAAAUGACCGUCGGCUGUGUGAUCAGCUGCGGCUGCUGCUGACCCGGCGGCGGGGAUCCGAUCAUGGCCUGCGGCGUCAUGCU
(((((((((((.(((((.((((((((((..((.(((((....(.(((.((((((......))))))))))..)))))))..)))))))((....))))).)))))..))))))..))))) ( -61.80)
>DroEre_CAF1 5662 120 - 1
GGCAUUGCCGUUGCCAUUGUUGCCACCGUUUCCAGCGGAUAUGACCGUCGGCUGGGUGAUCAACUGCGGCUGCUGUUGGCCCGGCGGCGGGGAUCCGAUCAUGGCCUGCGGUGUCAUGCU
((((.......))))...((((.((((((..(((.(((((....((((((.((((((...((((.((....)).))))))))))))))))..)))))....)))...)))))).)).)). ( -53.70)
>DroYak_CAF1 5590 120 - 1
GGCGUUGCCGUUGCCAUUAUUGCCGCCAUUGCCGGCGGAUAUGACCGUCGGCUGGGUGAUCAGCUGCGGCUGCUGCUGGCCAGGCGGCGGUGAACCGAUCAUCGCCUGCGGUGUCAUGCU
((((.......)))).(((((((((((...((((((((....(.(((.(((((((....)))))))))))..))))))))..)))))))))))...((.(((((....)))))))..... ( -60.40)
>consensus
GGCGUUGCCGUUGCCAUUGUUGCCGCCGUUUCCGGCGGAAAUGACCGUCGGCUGUGUGAUCAGCUGCGGCUGCUGCUGACCCGGCGGCGGGGAUCCGAUCAUGGCCUGCGGUGUCAUGCU
(((((((((((.(((((.(((((((((....(((((((......)))))))........(((((.((....)).)))))...))))))((....))))).)))))..))))))..))))) (-48.88 = -48.80 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:09 2006