Locus 6484

Sequence ID 3R_DroMel_CAF1
Location 17,060,700 – 17,060,795
Length 95
Max. P 0.999721
window10552 window10553

overview

Window 2

Location 17,060,700 – 17,060,795
Length 95
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 91.99
Mean single sequence MFE -25.73
Consensus MFE -23.90
Energy contribution -24.06
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.75
Structure conservation index 0.93
SVM decision value 3.73
SVM RNA-class probability 0.999564
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17060700 95 + 27905053
UUGGUUCUUGGCAUUUCACAUCAUCGAUUAAAUGCAUCCAGCGACUUCUGUUCUGUUCACCUUCGCUGCUUCUGUUGAUGAGGUGAAAUCCAUGC
........(((.(((((((.((((((((.....(((....((((....((.......))...)))))))....)))))))).))))))))))... ( -25.90)
>DroSec_CAF1 11142 95 + 1
UUGGUUCUUGGCAUUUCACAUCAUCGAUUAAAUGCAUCCAGCGACUUCUGUUCUGUUCACCUUCGCUGCUUCUGUUGAUGAGGUGAAAUCCAUGC
........(((.(((((((.((((((((.....(((....((((....((.......))...)))))))....)))))))).))))))))))... ( -25.90)
>DroSim_CAF1 10934 95 + 1
UUGGUUCUUGGCAUUUCACAUCAUCGAUUAAAUGCAUCCAGCGACUUCUGUUCUGUUCACCUUCGCUGCUUCUGUUGAUGAGGUGAAAUCCAUGU
........(((.(((((((.((((((((.....(((....((((....((.......))...)))))))....)))))))).))))))))))... ( -25.90)
>DroEre_CAF1 11263 90 + 1
UUGGUUCUUGGCAUUUCACAUCAUCGAUUAAAUGCAUCCAGCGACUUCU-----GUUCACCUUCGCUGCUUCUGUUGAUGAGGUGAAAUCCAUGC
........(((.(((((((.((((((((.....(((....((((.....-----........)))))))....)))))))).))))))))))... ( -25.72)
>DroYak_CAF1 11429 90 + 1
AUGGUUCUUGGCAUUUCACAUCAUCGAUUAAAUGCAUCCAGCGACUUCU-----GUUCACCUUCGCUGCUUCUGUUGAUGAGGUGAAAUCCAUGU
........(((.(((((((.((((((((.....(((....((((.....-----........)))))))....)))))))).))))))))))... ( -25.72)
>DroAna_CAF1 10632 85 + 1
CGAGUUCUUAGCAUUUCACAUCAUCGAUU-----UAUCCAGCGACUUCU-----GUUCACCUUCGCUGCUUCUGUUGAUGAGGUGAAAUCCAAGU
......(((.(.(((((((.((((((((.-----.(..((((((.....-----........))))))..)..)))))))).)))))))).))). ( -25.22)
>consensus
UUGGUUCUUGGCAUUUCACAUCAUCGAUUAAAUGCAUCCAGCGACUUCU_____GUUCACCUUCGCUGCUUCUGUUGAUGAGGUGAAAUCCAUGC
........(((.(((((((.((((((((..........((((((..................)))))).....)))))))).))))))))))... (-23.90 = -24.06 +   0.17)

alignment

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secondary structure

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dotplot

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Window 3

Location 17,060,700 – 17,060,795
Length 95
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 91.99
Mean single sequence MFE -28.62
Consensus MFE -25.86
Energy contribution -25.72
Covariance contribution -0.14
Combinations/Pair 1.04
Mean z-score -3.59
Structure conservation index 0.90
SVM decision value 3.95
SVM RNA-class probability 0.999721
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17060700 95 - 27905053
GCAUGGAUUUCACCUCAUCAACAGAAGCAGCGAAGGUGAACAGAACAGAAGUCGCUGGAUGCAUUUAAUCGAUGAUGUGAAAUGCCAAGAACCAA
...((((((((((.(((((........((((((..((.......)).....))))))(((.......)))))))).))))))).)))........ ( -28.60)
>DroSec_CAF1 11142 95 - 1
GCAUGGAUUUCACCUCAUCAACAGAAGCAGCGAAGGUGAACAGAACAGAAGUCGCUGGAUGCAUUUAAUCGAUGAUGUGAAAUGCCAAGAACCAA
...((((((((((.(((((........((((((..((.......)).....))))))(((.......)))))))).))))))).)))........ ( -28.60)
>DroSim_CAF1 10934 95 - 1
ACAUGGAUUUCACCUCAUCAACAGAAGCAGCGAAGGUGAACAGAACAGAAGUCGCUGGAUGCAUUUAAUCGAUGAUGUGAAAUGCCAAGAACCAA
...((((((((((.(((((........((((((..((.......)).....))))))(((.......)))))))).))))))).)))........ ( -28.60)
>DroEre_CAF1 11263 90 - 1
GCAUGGAUUUCACCUCAUCAACAGAAGCAGCGAAGGUGAAC-----AGAAGUCGCUGGAUGCAUUUAAUCGAUGAUGUGAAAUGCCAAGAACCAA
...((((((((((.(((((........((((((..(....)-----.....))))))(((.......)))))))).))))))).)))........ ( -28.70)
>DroYak_CAF1 11429 90 - 1
ACAUGGAUUUCACCUCAUCAACAGAAGCAGCGAAGGUGAAC-----AGAAGUCGCUGGAUGCAUUUAAUCGAUGAUGUGAAAUGCCAAGAACCAU
...((((((((((.(((((........((((((..(....)-----.....))))))(((.......)))))))).))))))).)))........ ( -28.70)
>DroAna_CAF1 10632 85 - 1
ACUUGGAUUUCACCUCAUCAACAGAAGCAGCGAAGGUGAAC-----AGAAGUCGCUGGAUA-----AAUCGAUGAUGUGAAAUGCUAAGAACUCG
.((((((((((((.(((((........((((((..(....)-----.....))))))((..-----..))))))).))))))).)))))...... ( -28.50)
>consensus
ACAUGGAUUUCACCUCAUCAACAGAAGCAGCGAAGGUGAAC_____AGAAGUCGCUGGAUGCAUUUAAUCGAUGAUGUGAAAUGCCAAGAACCAA
...((((((((((.(((((........((((((..................))))))(((.......)))))))).))))))).)))........ (-25.86 = -25.72 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:31 2006