Locus 7359

Sequence ID 3L_DroMel_CAF1
Location 19,726,815 – 19,726,969
Length 154
Max. P 0.994337
window11957 window11958

overview

Window 7

Location 19,726,815 – 19,726,935
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.75
Mean single sequence MFE -30.58
Consensus MFE -26.96
Energy contribution -27.12
Covariance contribution 0.16
Combinations/Pair 1.10
Mean z-score -2.09
Structure conservation index 0.88
SVM decision value 2.47
SVM RNA-class probability 0.994337
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19726815 120 + 23771897
GAGGGCAGAGGAGAUCAGUUGUUGUGAUAAUGCAACGGGUGAAGAAAACAAAUGCAAAAAGUUUCUGCGUGUGAGCGCGAAAGUGCGUGAGCGGCGGUCCAAACAAAAACAAAAGCGCGA
..(.((........(((.(((((((......))))))).)))..................((((((((.(((..((((....))))....)))))))...))))..........)).).. ( -31.40)
>DroSec_CAF1 36449 120 + 1
GGGGGGAGAGGAGAUCAGUUGUUGUGAUAAUGCAACGGGUGAAGAAAACAAAUGCAAAAAGUUUGUGCGUGUGUGCGCGAAAGUGCGUGAGCGGCGGUCCAAACAAAAACAAAAGCGCGG
..............(((.(((((((......))))))).))).....((((((.......))))))((((.(((((((....)))).((..(....)..)).......)))...)))).. ( -30.80)
>DroSim_CAF1 38633 120 + 1
GGGGGGAGAGGAGAUCAGUUGUUGUGAUAAUGCAACGGGUGAAGAAAACAAAUGCAAAAAGUUUGUGCGUGUGUGCGCGAAAGUGCGUGAGCGGCGGUCCAAACAAAAACAAAAGCGCGG
..............(((.(((((((......))))))).))).....((((((.......))))))((((.(((((((....)))).((..(....)..)).......)))...)))).. ( -30.80)
>DroEre_CAF1 39583 119 + 1
GGGAGGAGAGGAGAUCAGUUGUUGUGAUAAUGCAACGGGUGAAGAAAACAAAUGCAAAAAGUUUGUGCGUGUGUGCGCGAAAGUGCGUGAGCGGCGGUCCAAACAAAAACAAA-UUGCGG
....(((..(....(((.(((((((......))))))).))).....((((((.......)))))).(((...(((((....)))))...))).)..))).............-...... ( -29.50)
>DroYak_CAF1 37537 119 + 1
GGGAGGAGAGGAGAUCAGUUGUUGUGAUAAUGCAACGGGUGAAGAAAACAAAUGCAAAAAGUUUGUGCGUGUGUGCACGAAAGUGCGUGAGCGGCGGUCGAAACAAAAACAAA-ACGCGG
..............(((.(((((((......))))))).))).....((((((.......))))))((((.(((((((....))))((...((.....))..))....)))..-)))).. ( -30.40)
>consensus
GGGGGGAGAGGAGAUCAGUUGUUGUGAUAAUGCAACGGGUGAAGAAAACAAAUGCAAAAAGUUUGUGCGUGUGUGCGCGAAAGUGCGUGAGCGGCGGUCCAAACAAAAACAAAAGCGCGG
..............(((.(((((((......))))))).))).....((((((.......))))))((((.(((((((....))))((..((....))....))....)))...)))).. (-26.96 = -27.12 +   0.16)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 8

Location 19,726,855 – 19,726,969
Length 114
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 94.74
Mean single sequence MFE -29.74
Consensus MFE -26.71
Energy contribution -26.71
Covariance contribution 0.00
Combinations/Pair 1.13
Mean z-score -1.60
Structure conservation index 0.90
SVM decision value 0.31
SVM RNA-class probability 0.682328
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19726855 114 + 23771897
GAAGAAAACAAAUGCAAAAAGUUUCUGCGUGUGAGCGCGAAAGUGCGUGAGCGGCGGUCCAAACAAAAACAAAAGCGCGAAGCAAAAAUGGUUUUCUUUUUGUUUCAGUUUAUG
........((.(((((.........))))).)).((((....))))((((((.(((.(...............).)))((((((((((........)))))))))).)))))). ( -28.36)
>DroSec_CAF1 36489 114 + 1
GAAGAAAACAAAUGCAAAAAGUUUGUGCGUGUGUGCGCGAAAGUGCGUGAGCGGCGGUCCAAACAAAAACAAAAGCGCGGAGCAAAAACGGUUUUCUUUUUGUUUCAGUUUAUG
.......((((((.......))))))((((.(((((((....)))).((..(....)..)).......)))...))))((((((((((........))))))))))........ ( -28.60)
>DroSim_CAF1 38673 114 + 1
GAAGAAAACAAAUGCAAAAAGUUUGUGCGUGUGUGCGCGAAAGUGCGUGAGCGGCGGUCCAAACAAAAACAAAAGCGCGGAGCAAAAACGGUUUUCUUUUUGUUUCAGUUUAUG
.......((((((.......))))))((((.(((((((....)))).((..(....)..)).......)))...))))((((((((((........))))))))))........ ( -28.60)
>DroYak_CAF1 37577 113 + 1
GAAGAAAACAAAUGCAAAAAGUUUGUGCGUGUGUGCACGAAAGUGCGUGAGCGGCGGUCGAAACAAAAACAAA-ACGCGGAGUAAAAUCGGUUUUCUUUUUGUUUCAGCUUCUG
((((...((((((.......))))))((.(((.(((((....)))))...)))))....((((((((((.(((-((.(((.......)))))))).))))))))))..)))).. ( -33.40)
>consensus
GAAGAAAACAAAUGCAAAAAGUUUGUGCGUGUGUGCGCGAAAGUGCGUGAGCGGCGGUCCAAACAAAAACAAAAGCGCGGAGCAAAAACGGUUUUCUUUUUGUUUCAGUUUAUG
.......(((.(((((.........))))).)))((((....))))((((((.(((...................)))((((((((((........)))))))))).)))))). (-26.71 = -26.71 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:00 2006