Locus 2517

Sequence ID 3L_DroMel_CAF1
Location 7,072,151 – 7,072,260
Length 109
Max. P 0.995525
window3908 window3909 window3910

overview

Window 8

Location 7,072,151 – 7,072,249
Length 98
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 93.69
Mean single sequence MFE -31.70
Consensus MFE -26.48
Energy contribution -27.28
Covariance contribution 0.80
Combinations/Pair 1.07
Mean z-score -2.47
Structure conservation index 0.84
SVM decision value 2.59
SVM RNA-class probability 0.995525
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7072151 98 + 23771897
AAUGGCUGCUUAAAUGCGAGAAUAAUUGUUAUGCAGCAGCUG-ACGGGAGGAUGCGCAGUUGUCACUUGGCAACUGCUAUAUGAUUCUUUGCGCUUUUU
...(((((((.....((((......)))).....))))))).-....(((((.((((((..((((..((((....))))..))))...))))))))))) ( -32.00)
>DroSec_CAF1 84687 98 + 1
AAUGGCUGCUUAAAUGCGCGAAUAAUUGUUAUGCAGCAGCUG-ACGGGAGGAUGCGCAGUUGUCACUUGGCAACUGCCAUAUGAUUCUUUGCGCUUUUU
...(((((((...(((.((((....)))))))..))))))).-....(((((.((((((..((((..((((....))))..))))...))))))))))) ( -32.70)
>DroSim_CAF1 117383 98 + 1
AAUGGCUGCUUAAAUGCGCGAAUAAUUGUUAUGCAGCAGCUG-ACGGGAGGAUGCGCAGUUGUCACUUGGCAACUGCUAUAUGAUUCUUUGCGCUUUUU
...(((((((...(((.((((....)))))))..))))))).-....(((((.((((((..((((..((((....))))..))))...))))))))))) ( -30.40)
>DroEre_CAF1 100667 98 + 1
AAUGGCUGCG-AAAUGCGAGAAUAAUUGUUAUGCAUCAGCCGAACGGGAGGAUGCGCAGUUGUCACUUGGCAACUGCUAUUUUAUUCUUUACACUUUUU
....((....-....))((((((((.......(((((..((.....))..)))))(((((((((....)))))))))....)))))))).......... ( -32.30)
>DroYak_CAF1 99393 97 + 1
AAUGGCAGCG-AAAUGCGAGAAUAAUUGUUAUGCAGCAGCUG-ACGGGAGGAUGCGCAGUUGUCACUUGGCAACUGCCAUUUUAUUCUUUGCACUUUUU
....(((((.-....))((((((((((((((.((....))))-))))...((((.(((((((((....))))))))))))))))))))))))....... ( -31.10)
>consensus
AAUGGCUGCUUAAAUGCGAGAAUAAUUGUUAUGCAGCAGCUG_ACGGGAGGAUGCGCAGUUGUCACUUGGCAACUGCUAUAUGAUUCUUUGCGCUUUUU
...(((((((.....((((......)))).....)))))))....(((((.(((.(((((((((....))))))))))))....))))).......... (-26.48 = -27.28 +   0.80)

alignment

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secondary structure

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dotplot

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Window 9

Location 7,072,170 – 7,072,260
Length 90
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 94.69
Mean single sequence MFE -29.10
Consensus MFE -24.06
Energy contribution -24.46
Covariance contribution 0.40
Combinations/Pair 1.07
Mean z-score -2.55
Structure conservation index 0.83
SVM decision value 2.39
SVM RNA-class probability 0.993305
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7072170 90 + 23771897
GAAUAAUUGUUAUGCAGCAGCUG-ACGGGAGGAUGCGCAGUUGUCACUUGGCAACUGCUAUAUGAUUCUUUGCGCUUUUUGCCGCGUUUCA
(((.....((((.((....))))-))((.((((.((((((..((((..((((....))))..))))...)))))).)))).))....))). ( -28.90)
>DroSec_CAF1 84706 90 + 1
GAAUAAUUGUUAUGCAGCAGCUG-ACGGGAGGAUGCGCAGUUGUCACUUGGCAACUGCCAUAUGAUUCUUUGCGCUUUUUGCCGCAUUUCA
(((.....((((.((....))))-))((.((((.((((((..((((..((((....))))..))))...)))))).)))).))....))). ( -31.20)
>DroSim_CAF1 117402 90 + 1
GAAUAAUUGUUAUGCAGCAGCUG-ACGGGAGGAUGCGCAGUUGUCACUUGGCAACUGCUAUAUGAUUCUUUGCGCUUUUUGCCGCAUUUCA
(((.....((((.((....))))-))((.((((.((((((..((((..((((....))))..))))...)))))).)))).))....))). ( -28.90)
>DroEre_CAF1 100685 91 + 1
GAAUAAUUGUUAUGCAUCAGCCGAACGGGAGGAUGCGCAGUUGUCACUUGGCAACUGCUAUUUUAUUCUUUACACUUUUUGCCGCUUUUCA
((((((.......(((((..((.....))..)))))(((((((((....)))))))))....))))))....................... ( -28.70)
>DroYak_CAF1 99411 90 + 1
GAAUAAUUGUUAUGCAGCAGCUG-ACGGGAGGAUGCGCAGUUGUCACUUGGCAACUGCCAUUUUAUUCUUUGCACUUUUUGCCGCGUUUCA
.......((..((((.((((.((-..((((.((((.(((((((((....)))))))))))))...))))...))....)))).))))..)) ( -27.80)
>consensus
GAAUAAUUGUUAUGCAGCAGCUG_ACGGGAGGAUGCGCAGUUGUCACUUGGCAACUGCUAUAUGAUUCUUUGCGCUUUUUGCCGCAUUUCA
.......((..((((.((((.....((.(((((((.(((((((((....)))))))))))......))))).))....)))).))))..)) (-24.06 = -24.46 +   0.40)

alignment

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secondary structure

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dotplot

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Window 0

Location 7,072,170 – 7,072,260
Length 90
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 94.69
Mean single sequence MFE -22.62
Consensus MFE -18.78
Energy contribution -18.98
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.83
SVM decision value 1.29
SVM RNA-class probability 0.938410
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7072170 90 - 23771897
UGAAACGCGGCAAAAAGCGCAAAGAAUCAUAUAGCAGUUGCCAAGUGACAACUGCGCAUCCUCCCGU-CAGCUGCUGCAUAACAAUUAUUC
......((((((.....................(((((((.(....).)))))))((..........-..))))))))............. ( -20.40)
>DroSec_CAF1 84706 90 - 1
UGAAAUGCGGCAAAAAGCGCAAAGAAUCAUAUGGCAGUUGCCAAGUGACAACUGCGCAUCCUCCCGU-CAGCUGCUGCAUAACAAUUAUUC
....((((((((....(((((.....((((.((((....)))).))))....)))))........(.-...)))))))))........... ( -28.10)
>DroSim_CAF1 117402 90 - 1
UGAAAUGCGGCAAAAAGCGCAAAGAAUCAUAUAGCAGUUGCCAAGUGACAACUGCGCAUCCUCCCGU-CAGCUGCUGCAUAACAAUUAUUC
....((((((((.....................(((((((.(....).)))))))((..........-..))))))))))........... ( -22.10)
>DroEre_CAF1 100685 91 - 1
UGAAAAGCGGCAAAAAGUGUAAAGAAUAAAAUAGCAGUUGCCAAGUGACAACUGCGCAUCCUCCCGUUCGGCUGAUGCAUAACAAUUAUUC
.......................((((((....(((((((.(....).)))))))(((((..((.....))..))))).......)))))) ( -21.70)
>DroYak_CAF1 99411 90 - 1
UGAAACGCGGCAAAAAGUGCAAAGAAUAAAAUGGCAGUUGCCAAGUGACAACUGCGCAUCCUCCCGU-CAGCUGCUGCAUAACAAUUAUUC
......((((((....((((...........((((....))))(((....)))))))........(.-...)))))))............. ( -20.80)
>consensus
UGAAACGCGGCAAAAAGCGCAAAGAAUCAUAUAGCAGUUGCCAAGUGACAACUGCGCAUCCUCCCGU_CAGCUGCUGCAUAACAAUUAUUC
......((((((.....................(((((((.(....).)))))))((.............))))))))............. (-18.78 = -18.98 +   0.20)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:40 2006