Locus 5944

Sequence ID 3R_DroMel_CAF1
Location 15,667,108 – 15,667,204
Length 96
Max. P 0.834791
window9700 window9701

overview

Window 0

Location 15,667,108 – 15,667,204
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 85.76
Mean single sequence MFE -39.22
Consensus MFE -33.88
Energy contribution -35.13
Covariance contribution 1.25
Combinations/Pair 1.15
Mean z-score -1.93
Structure conservation index 0.86
SVM decision value 0.73
SVM RNA-class probability 0.834791
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15667108 96 + 27905053
CAAAACCGCCCGCUGAUGUUGAAUGCCUGGCAGGUUCUUCAAGUUCAGUGGGGCGGUUGGUGGCAGAGGUGCUGGCCCACUCUAGUGGCAGCCAGU
((.(((((((((((((..(((((.(((.....)))..)))))..))))).))))))))..))........((((((((((....))))..)))))) ( -44.00)
>DroSec_CAF1 195013 96 + 1
CAAAACCGCCCGCUGAUGUUGAAUGCCUGGCAGGUUCUUCAAGUUCAGUGGGGCGGUUGGUGGCAGAGGUGCUGGCCCGCUCUAGUGGCAGCCAGU
((.(((((((((((((..(((((.(((.....)))..)))))..))))).))))))))..))........((((((((((....))))..)))))) ( -43.60)
>DroSim_CAF1 191125 96 + 1
CAAAACCGCCCGCUGAUGUUGAAUGCCUGGCAGGUUCUUCAAGUUCAGUGGGGCGGUUGGUGGCAGAGGUGCUGGCCCGCUCUAGUGGCAGCCAGU
((.(((((((((((((..(((((.(((.....)))..)))))..))))).))))))))..))........((((((((((....))))..)))))) ( -43.60)
>DroEre_CAF1 172484 96 + 1
CAAAACCGCCCGCUGAUGUUGAAUGCCCGGCAGGUUCUUCAAGUUCAGUGGGGCGGUUGGUGGCAGAGGCACUGGCCCACUCUUGUGGCGGCCAGU
((.(((((((((((((..(((((.(((.....)))..)))))..))))).))))))))..))((....))((((((((((....)))..))))))) ( -44.30)
>DroYak_CAF1 193282 96 + 1
CAGAACCGCCCGCUGAUGUUGAAUGCCCGGCAGGUUCUUCAAGUUCAGUGGGGCGGUUGGUGGCAGAGGUACUGGCCCACUCUCGUGGCAGCCAGU
...(((((((((((((..(((((.(((.....)))..)))))..))))).))))))))............((((((((((....))))..)))))) ( -41.80)
>DroAna_CAF1 189804 96 + 1
CAACAACGUUCAUUGAUUACAAAUGCCCGGCAGGUUAUAAUAUUUCAACUGACCAGCUGGUGGCACAAAGCCUGGCCCACUUUAGUUUCCGCAAGU
.......................((((((((.(((((............))))).))))).(((.((.....))))).............)))... ( -18.00)
>consensus
CAAAACCGCCCGCUGAUGUUGAAUGCCCGGCAGGUUCUUCAAGUUCAGUGGGGCGGUUGGUGGCAGAGGUGCUGGCCCACUCUAGUGGCAGCCAGU
((.(((((((((((((..(((((.(((.....)))..)))))..)))))))).)))))..))........((((((((((....))))..)))))) (-33.88 = -35.13 +   1.25)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,667,108 – 15,667,204
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 85.76
Mean single sequence MFE -34.22
Consensus MFE -28.18
Energy contribution -29.35
Covariance contribution 1.17
Combinations/Pair 1.14
Mean z-score -1.92
Structure conservation index 0.82
SVM decision value 0.36
SVM RNA-class probability 0.703788
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15667108 96 - 27905053
ACUGGCUGCCACUAGAGUGGGCCAGCACCUCUGCCACCAACCGCCCCACUGAACUUGAAGAACCUGCCAGGCAUUCAACAUCAGCGGGCGGUUUUG
.(((((..((((....))))))))).............((((((((..((((..(((((...((.....))..)))))..)))).))))))))... ( -36.50)
>DroSec_CAF1 195013 96 - 1
ACUGGCUGCCACUAGAGCGGGCCAGCACCUCUGCCACCAACCGCCCCACUGAACUUGAAGAACCUGCCAGGCAUUCAACAUCAGCGGGCGGUUUUG
.(((((((((....).)).)))))).............((((((((..((((..(((((...((.....))..)))))..)))).))))))))... ( -34.10)
>DroSim_CAF1 191125 96 - 1
ACUGGCUGCCACUAGAGCGGGCCAGCACCUCUGCCACCAACCGCCCCACUGAACUUGAAGAACCUGCCAGGCAUUCAACAUCAGCGGGCGGUUUUG
.(((((((((....).)).)))))).............((((((((..((((..(((((...((.....))..)))))..)))).))))))))... ( -34.10)
>DroEre_CAF1 172484 96 - 1
ACUGGCCGCCACAAGAGUGGGCCAGUGCCUCUGCCACCAACCGCCCCACUGAACUUGAAGAACCUGCCGGGCAUUCAACAUCAGCGGGCGGUUUUG
(((((((..(((....))))))))))............((((((((..((((..(((((...((....))...)))))..)))).))))))))... ( -38.90)
>DroYak_CAF1 193282 96 - 1
ACUGGCUGCCACGAGAGUGGGCCAGUACCUCUGCCACCAACCGCCCCACUGAACUUGAAGAACCUGCCGGGCAUUCAACAUCAGCGGGCGGUUCUG
((((((..((((....))))))))))............((((((((..((((..(((((...((....))...)))))..)))).))))))))... ( -41.60)
>DroAna_CAF1 189804 96 - 1
ACUUGCGGAAACUAAAGUGGGCCAGGCUUUGUGCCACCAGCUGGUCAGUUGAAAUAUUAUAACCUGCCGGGCAUUUGUAAUCAAUGAACGUUGUUG
..(((((((..((...(..((...(((.....)))..(((((....)))))...........))..)..))..))))))).((((....))))... ( -20.10)
>consensus
ACUGGCUGCCACUAGAGUGGGCCAGCACCUCUGCCACCAACCGCCCCACUGAACUUGAAGAACCUGCCAGGCAUUCAACAUCAGCGGGCGGUUUUG
.(((((..((((....))))))))).............((((((((..((((..(((((...((.....))..)))))..)))).))))))))... (-28.18 = -29.35 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:36 2006