Locus 7123

Sequence ID 3L_DroMel_CAF1
Location 19,172,377 – 19,172,497
Length 120
Max. P 0.999981
window11558 window11559

overview

Window 8

Location 19,172,377 – 19,172,497
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.42
Mean single sequence MFE -50.78
Consensus MFE -47.72
Energy contribution -46.64
Covariance contribution -1.08
Combinations/Pair 1.22
Mean z-score -3.18
Structure conservation index 0.94
SVM decision value 5.28
SVM RNA-class probability 0.999981
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19172377 120 + 23771897
GCAAACCAGCUUCCACUUGAUUGCUGCUUUUCCGGAUUCUGCUGGUUUUUCUUGUCUUUCCCUGCGACAGAGUCGCCGGGGAAGACAUCCGUCAGGAGUUGGCAAAUGGAAGUUGGAGCG
((...((((((((((.(((...(((.((...((((......)))).......((((((((((.(((((...))))).))))))))))......)).)))...))).)))))))))).)). ( -52.20)
>DroSec_CAF1 2318 120 + 1
GCAAACCAGCUUCCACUUGAUUGCUGCUUUUCCGGAUGCUGCUGGUUUUUCUUGCCUUUCCCUGCAACAGAGUCGCCGGGGCAGUCAUCUGUCAGGAGUUGGCAAAUGGAAGCUGGAGCG
((...((((((((((.(((...(((.((....((((((((((((((..(((((((........)))..))))..)))..))))).))))))..)).)))...))).)))))))))).)). ( -49.70)
>DroSim_CAF1 5261 120 + 1
GCAAACCAGCUUCCACUUGAUUGCUGCUUUUCCGGAUGCUGCUGGUUUUUCUUGCUUUUCCCUGCGACAGAGUCGCCGGGGCAGUCAUCCGUCAGGAGUUGGCAAAUGGAAGCUGGAGCG
((...((((((((((.(((...(((.((....((((((((((.(((.......)))...(((.(((((...))))).))))))).))))))..)).)))...))).)))))))))).)). ( -55.20)
>DroEre_CAF1 4920 120 + 1
GCAAACCAGCUUCCACUUGAUUGCUGCUUUUCCGGAUGCCGUUGGUUUUUCUUGCCUUUCUCUGCGGCAGAGUCGCCGGGGCAGCCAUCCGUCAGGAGUUGGCAAAUGGAAGUUGGAGCG
((...((((((((((.(((...((((((...((((.((((((.(((.......))).......))))))......))))))))))..(((....))).....))).)))))))))).)). ( -48.40)
>DroYak_CAF1 6855 120 + 1
GCAAACCAGCUUCCACUUGAUUGCUGCUUUUCCGGAUGCUGUUGGUUUUUCUUGCCUUUCUCUGCGGCCGAGUCGGCGGGGCAGUCAUCCGUCAGGAGUUGGCAAAUGGAAGUUGGAGCG
((...((((((((((.(((...(((.((....((((((((((((((.......)))........(.((((...)))).)))))).))))))..)).)))...))).)))))))))).)). ( -48.40)
>consensus
GCAAACCAGCUUCCACUUGAUUGCUGCUUUUCCGGAUGCUGCUGGUUUUUCUUGCCUUUCCCUGCGACAGAGUCGCCGGGGCAGUCAUCCGUCAGGAGUUGGCAAAUGGAAGUUGGAGCG
((...((((((((((.(((...(((.((....((((((((((.(((.......)))...(((.(((((...))))).)))))))).)))))..)).)))...))).)))))))))).)). (-47.72 = -46.64 +  -1.08)

alignment

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secondary structure

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dotplot

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Window 9

Location 19,172,377 – 19,172,497
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.42
Mean single sequence MFE -44.96
Consensus MFE -34.16
Energy contribution -35.84
Covariance contribution 1.68
Combinations/Pair 1.05
Mean z-score -3.28
Structure conservation index 0.76
SVM decision value 1.55
SVM RNA-class probability 0.963065
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19172377 120 - 23771897
CGCUCCAACUUCCAUUUGCCAACUCCUGACGGAUGUCUUCCCCGGCGACUCUGUCGCAGGGAAAGACAAGAAAAACCAGCAGAAUCCGGAAAAGCAGCAAUCAAGUGGAAGCUGGUUUGC
.((.(((.((((((((((....((.((..((((((((((.(((.(((((...))))).))).)))))..(......)......)))))....)).))....)))))))))).)))...)) ( -44.00)
>DroSec_CAF1 2318 120 - 1
CGCUCCAGCUUCCAUUUGCCAACUCCUGACAGAUGACUGCCCCGGCGACUCUGUUGCAGGGAAAGGCAAGAAAAACCAGCAGCAUCCGGAAAAGCAGCAAUCAAGUGGAAGCUGGUUUGC
.((.((((((((((((((....((.((..(.((((.(((((((.(((((...))))).)))...((.........)).)))))))).)....)).))....))))))))))))))...)) ( -47.30)
>DroSim_CAF1 5261 120 - 1
CGCUCCAGCUUCCAUUUGCCAACUCCUGACGGAUGACUGCCCCGGCGACUCUGUCGCAGGGAAAAGCAAGAAAAACCAGCAGCAUCCGGAAAAGCAGCAAUCAAGUGGAAGCUGGUUUGC
.((.((((((((((((((....((.((..((((((.(((((((.(((((...))))).)))........(......).))))))))))....)).))....))))))))))))))...)) ( -53.60)
>DroEre_CAF1 4920 120 - 1
CGCUCCAACUUCCAUUUGCCAACUCCUGACGGAUGGCUGCCCCGGCGACUCUGCCGCAGAGAAAGGCAAGAAAAACCAACGGCAUCCGGAAAAGCAGCAAUCAAGUGGAAGCUGGUUUGC
.((.(((.((((((((((....((.((..((((((.((((....)))..((((((.........))).))).........).))))))....)).))....)))))))))).)))...)) ( -40.30)
>DroYak_CAF1 6855 120 - 1
CGCUCCAACUUCCAUUUGCCAACUCCUGACGGAUGACUGCCCCGCCGACUCGGCCGCAGAGAAAGGCAAGAAAAACCAACAGCAUCCGGAAAAGCAGCAAUCAAGUGGAAGCUGGUUUGC
.((.(((.((((((((((....((.((..((((((.((((...((((...)))).)))).....((.........)).....))))))....)).))....)))))))))).)))...)) ( -39.60)
>consensus
CGCUCCAACUUCCAUUUGCCAACUCCUGACGGAUGACUGCCCCGGCGACUCUGUCGCAGGGAAAGGCAAGAAAAACCAGCAGCAUCCGGAAAAGCAGCAAUCAAGUGGAAGCUGGUUUGC
.((.(((.((((((((((....((.((..((((((.(((((((.(((((...))))).)))........(......).))))))))))....)).))....)))))))))).)))...)) (-34.16 = -35.84 +   1.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:29 2006