Locus 1370

Sequence ID 3R_DroMel_CAF1
Location 4,006,724 – 4,006,857
Length 133
Max. P 0.874155
window2259 window2260

overview

Window 9

Location 4,006,724 – 4,006,817
Length 93
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 94.62
Mean single sequence MFE -23.50
Consensus MFE -22.45
Energy contribution -22.82
Covariance contribution 0.37
Combinations/Pair 1.08
Mean z-score -1.53
Structure conservation index 0.96
SVM decision value 0.45
SVM RNA-class probability 0.742133
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4006724 93 + 27905053
UUGAUAAGCGCAAGUGCCAGAUUUUUGGUAUGCGUGUGUCAGCACUUUUUUAUUAUAUUCAUACUAUUGGUUGCAAAGGCUGAUCGCUCGAUA
((((...(((((..((((((....)))))))))))((((((((.((((...((((............))))...))))))))).))))))).. ( -23.60)
>DroSec_CAF1 12273 93 + 1
UUGAUAAGCGCAAGUGCCAGAUUUUUGUUAUGCGUGUGUCAGCAAUUUUUUAUUAUAUUUAUACGAUAGGUUGCAAAGGCUGAUCGCUCGAUA
......((((.....(((.(((...((.....))...))).(((((...((((..((....))..)))))))))...)))....))))..... ( -16.10)
>DroSim_CAF1 12855 93 + 1
UUGAUAAGCGCAAGUGCCAGAUUUUUGGUAUGCGUGUGUCAGCAAUUUUUUAUUAUAUUUAUACGAUUGGUUGCAAAGGCUGAUCGCUCGAUA
((((((.(((((..((((((....))))))))))).)))))).....................((((..(((.....)))..))))....... ( -25.10)
>DroYak_CAF1 12278 93 + 1
CUGAUAAGCGCAAGUGCCAGAUUUUUGGUAUGCGUGUGUCAGCAAAUUUGUAUUAUAUUUAUACGAUUGGCUACAAAGGCUGAUCGCUCGAUA
((((((.(((((..((((((....))))))))))).)))))).....................((((..(((.....)))..))))....... ( -29.20)
>consensus
UUGAUAAGCGCAAGUGCCAGAUUUUUGGUAUGCGUGUGUCAGCAAUUUUUUAUUAUAUUUAUACGAUUGGUUGCAAAGGCUGAUCGCUCGAUA
((((((.(((((..((((((....))))))))))).)))))).....................(((((((((.....)))))))))....... (-22.45 = -22.82 +   0.37)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 4,006,764 – 4,006,857
Length 93
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 95.16
Mean single sequence MFE -23.03
Consensus MFE -21.39
Energy contribution -22.45
Covariance contribution 1.06
Combinations/Pair 1.03
Mean z-score -1.84
Structure conservation index 0.93
SVM decision value 0.88
SVM RNA-class probability 0.874155
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4006764 93 + 27905053
AGCACUUUUUUAUUAUAUUCAUACUAUUGGUUGCAAAGGCUGAUCGCUCGAUAAGGAUAAUGAAUUUUGCGCGCGGCUAGCGUUAAAAACUUU
............................((((...((.((((..(((.((...(((((.....))))).)).)))..)))).))...)))).. ( -17.30)
>DroSec_CAF1 12313 93 + 1
AGCAAUUUUUUAUUAUAUUUAUACGAUAGGUUGCAAAGGCUGAUCGCUCGAUAAGGAUAAUGAAUUUUGCGCGCGGCUAGCGUUAAAAACUUU
.((((...((((((((.(((((.(((..((((((....)).))))..)))))))).))))))))..))))((((.....)))).......... ( -23.30)
>DroSim_CAF1 12895 93 + 1
AGCAAUUUUUUAUUAUAUUUAUACGAUUGGUUGCAAAGGCUGAUCGCUCGAUAAGGAUAAUGAAUUUUGCGCGCGGCUAGCGUUAAAAACUUU
.((((...((((((((.(((((.((((..(((.....)))..))))....))))).))))))))..))))((((.....)))).......... ( -25.30)
>DroYak_CAF1 12318 93 + 1
AGCAAAUUUGUAUUAUAUUUAUACGAUUGGCUACAAAGGCUGAUCGCUCGAUAAGGAUAAUGAAUUUUGCGCGCGGCUAGCGUUAAAAUCUUU
.(((((....((((((.(((((.((((..(((.....)))..))))....))))).))))))...)))))((((.....)))).......... ( -26.20)
>consensus
AGCAAUUUUUUAUUAUAUUUAUACGAUUGGUUGCAAAGGCUGAUCGCUCGAUAAGGAUAAUGAAUUUUGCGCGCGGCUAGCGUUAAAAACUUU
.((((...((((((((.(((((.(((((((((.....)))))))))....))))).))))))))..))))((((.....)))).......... (-21.39 = -22.45 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:23 2006