Locus 5638

Sequence ID 3L_DroMel_CAF1
Location 15,490,233 – 15,490,353
Length 120
Max. P 0.827748
window8908 window8909

overview

Window 8

Location 15,490,233 – 15,490,353
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.42
Mean single sequence MFE -31.66
Consensus MFE -29.33
Energy contribution -29.39
Covariance contribution 0.06
Combinations/Pair 1.04
Mean z-score -1.77
Structure conservation index 0.93
SVM decision value 0.70
SVM RNA-class probability 0.826046
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15490233 120 + 23771897
UCAACGCACAGGUAAAACAUGUGGCAGUCCUCCGCAUGCUCCACAAACUCACCAACCAAAUGAUUGGCACAUAUUCUACUACCACUCUGCCUGAUGGUCACCGAGUUUGUGGGCUUCGAU
.....((..........(((((((.......)))))))..((((((((((.((((.(....).)))).............((((.((.....))))))....))))))))))))...... ( -32.80)
>DroSec_CAF1 31437 120 + 1
UCAACGCACAGGUAAAACAUGUGGCAGUCCUCCGCAUGCUUCACAAACUCACCAACCAAAUGAUUGGCACAAAUUCUACUUCCACUCUGCCGGAUGGUCACCGAGUUUGUGGGCUUCGAU
.....((..........(((((((.......)))))))..((((((((((((((.((....((.(((..............))).))....)).))))....))))))))))))...... ( -30.74)
>DroSim_CAF1 33463 120 + 1
UCAACGCACAGGUAAAACAUGUGGCAAUCCUCCGCAUGCUCCACAAACUCACCAACCAAAUGAUUGGCACAAAUUCUACUCCCACUCUGCCGGAUGGUCACCGAGUUUGUGGGCUUCGAU
.....((..........(((((((.......)))))))..((((((((((((((.((....((.(((..............))).))....)).))))....))))))))))))...... ( -33.64)
>DroYak_CAF1 113817 120 + 1
UCAACGCACAGGUAAAACAUAUGGCAGUCCUCCGCAUGCUCCACAAACUCACCAACCAAAUGAUUGGCACAAAAUCUACUCCCACUUUGCCUGAUGGUCACCGAGUUUGUGGGCUUGGUU
.....((.(((((.........((((((.....)).))))((((((((((....((((.......((((..................))))...))))....))))))))))))))))). ( -29.47)
>consensus
UCAACGCACAGGUAAAACAUGUGGCAGUCCUCCGCAUGCUCCACAAACUCACCAACCAAAUGAUUGGCACAAAUUCUACUCCCACUCUGCCGGAUGGUCACCGAGUUUGUGGGCUUCGAU
.....((..........(((((((.......)))))))..((((((((((....((((.......((((..................))))...))))....))))))))))))...... (-29.33 = -29.39 +   0.06)

alignment

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secondary structure

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dotplot

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Window 9

Location 15,490,233 – 15,490,353
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 95.42
Mean single sequence MFE -40.60
Consensus MFE -38.30
Energy contribution -38.80
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.94
SVM decision value 0.70
SVM RNA-class probability 0.827748
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15490233 120 - 23771897
AUCGAAGCCCACAAACUCGGUGACCAUCAGGCAGAGUGGUAGUAGAAUAUGUGCCAAUCAUUUGGUUGGUGAGUUUGUGGAGCAUGCGGAGGACUGCCACAUGUUUUACCUGUGCGUUGA
......(((((((((((((.((((((...((((.(...((......)).).)))).......)))))).))))))))))).))(((((.(((...((.....))....))).)))))... ( -41.00)
>DroSec_CAF1 31437 120 - 1
AUCGAAGCCCACAAACUCGGUGACCAUCCGGCAGAGUGGAAGUAGAAUUUGUGCCAAUCAUUUGGUUGGUGAGUUUGUGAAGCAUGCGGAGGACUGCCACAUGUUUUACCUGUGCGUUGA
.((((.((.((((((((((.((((((...((((.((............)).)))).......)))))).))))))))))(((((((.((.......)).))))))).......)).)))) ( -38.20)
>DroSim_CAF1 33463 120 - 1
AUCGAAGCCCACAAACUCGGUGACCAUCCGGCAGAGUGGGAGUAGAAUUUGUGCCAAUCAUUUGGUUGGUGAGUUUGUGGAGCAUGCGGAGGAUUGCCACAUGUUUUACCUGUGCGUUGA
......(((((((((((((.((((((...((((.((............)).)))).......)))))).))))))))))).))(((((.((((..((.....))..).))).)))))... ( -41.90)
>DroYak_CAF1 113817 120 - 1
AACCAAGCCCACAAACUCGGUGACCAUCAGGCAAAGUGGGAGUAGAUUUUGUGCCAAUCAUUUGGUUGGUGAGUUUGUGGAGCAUGCGGAGGACUGCCAUAUGUUUUACCUGUGCGUUGA
......(((((((((((((....)......(((((((........)))))))(((((((....))))))))))))))))).))(((((.(((...((.....))....))).)))))... ( -41.30)
>consensus
AUCGAAGCCCACAAACUCGGUGACCAUCAGGCAGAGUGGGAGUAGAAUUUGUGCCAAUCAUUUGGUUGGUGAGUUUGUGGAGCAUGCGGAGGACUGCCACAUGUUUUACCUGUGCGUUGA
......(((((((((((((.((((((...((((.((............)).)))).......)))))).))))))))))).))(((((.(((...((.....))....))).)))))... (-38.30 = -38.80 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:16 2006