Locus 5176

Sequence ID 3L_DroMel_CAF1
Location 14,251,358 – 14,251,460
Length 102
Max. P 0.857699
window8195 window8196

overview

Window 5

Location 14,251,358 – 14,251,460
Length 102
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 86.08
Mean single sequence MFE -26.83
Consensus MFE -22.27
Energy contribution -23.27
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.32
Structure conservation index 0.83
SVM decision value 0.81
SVM RNA-class probability 0.857699
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14251358 102 + 23771897
CCACUUCCUAUGAGCCGUUGGCCCCACGUAAAGCCAGCUCCAUCAUUUAUAACUGUCAACAGUUUUUGUGGCCCAAACGGGCCAAGUAAAUGCAGAAAAAAA
....(((....((((...((((..........))))))))...((((((((((((....)))))....((((((....)))))).)))))))..)))..... ( -27.70)
>DroSec_CAF1 82021 101 + 1
CCACUUCCUAUGAGCCGUUGGCCCCACAGAAUGCCAGCCCCAUCAUUUAUAACUGUCAACAGUUUUUGUGGCCCAAACGGGCCAAGUAAAUGCAGAAA-AAA
....(((.........((((((..........)))))).....((((((((((((....)))))....((((((....)))))).)))))))..))).-... ( -26.70)
>DroSim_CAF1 82084 102 + 1
CCACUUCCUAUGAGCCGUUGGCCCCACGGAAAGCCAGCCCCAUCAUUUAUAACUGUCAACAGUUUUUGUGGCCCAAACGGGCCAAGUAAAUGCAGAAAAAAA
....(((.........((((((.(....)...)))))).....((((((((((((....)))))....((((((....)))))).)))))))..)))..... ( -27.00)
>DroEre_CAF1 81246 95 + 1
-------CUAUGAGCCGUUGGCCCCACGGAAAGCCAGCCCCAUCAUUUAUAACUGUCAACAGUUUUUCUGGCCCAAGCGGGCCAAGUAAAUGCAGAAAAAGA
-------.........((((((.(....)...)))))).....((((((((((((....)))))....((((((....)))))).))))))).......... ( -26.80)
>DroYak_CAF1 84748 102 + 1
CCACUUCCUAUGAGUCGUUGGCCCCACGGUAAGCCAGCCCCAUCAUUUAUAACUGUCAACAGUUUUUGUGGCCCAAACGGGCCAAGCAAAUGCAGAAAAACA
.........(((((..((((((.(....)...))))))..).))))...............((((((.((((((....)))))).((....))..)))))). ( -26.90)
>DroAna_CAF1 78487 89 + 1
CCACUUCCU--GAGCCACUG-----------CGGCAACCCCAUCAUUUAUAACUGUCAACAGUUUUUGUGGCCCGAACGUGCCACGUAAAUGUUGGAAAAUA
.........--..(((....-----------.)))....(((.((((((((((((....)))))...(((((.(....).)))))))))))).)))...... ( -25.90)
>consensus
CCACUUCCUAUGAGCCGUUGGCCCCACGGAAAGCCAGCCCCAUCAUUUAUAACUGUCAACAGUUUUUGUGGCCCAAACGGGCCAAGUAAAUGCAGAAAAAAA
................((((((..........)))))).....((((((((((((....)))))....((((((....)))))).))))))).......... (-22.27 = -23.27 +   1.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,251,358 – 14,251,460
Length 102
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 86.08
Mean single sequence MFE -32.25
Consensus MFE -26.74
Energy contribution -28.12
Covariance contribution 1.38
Combinations/Pair 1.12
Mean z-score -1.81
Structure conservation index 0.83
SVM decision value 0.25
SVM RNA-class probability 0.655193
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14251358 102 - 23771897
UUUUUUUCUGCAUUUACUUGGCCCGUUUGGGCCACAAAAACUGUUGACAGUUAUAAAUGAUGGAGCUGGCUUUACGUGGGGCCAACGGCUCAUAGGAAGUGG
...(((((((((((((..((((((....))))))....(((((....))))).))))))...(((((((((((....))))))...))))).)))))))... ( -34.60)
>DroSec_CAF1 82021 101 - 1
UUU-UUUCUGCAUUUACUUGGCCCGUUUGGGCCACAAAAACUGUUGACAGUUAUAAAUGAUGGGGCUGGCAUUCUGUGGGGCCAACGGCUCAUAGGAAGUGG
...-.(((((((((((..((((((....))))))....(((((....))))).)))))).)))))...((.(((((((((.(....).))))))))).)).. ( -32.30)
>DroSim_CAF1 82084 102 - 1
UUUUUUUCUGCAUUUACUUGGCCCGUUUGGGCCACAAAAACUGUUGACAGUUAUAAAUGAUGGGGCUGGCUUUCCGUGGGGCCAACGGCUCAUAGGAAGUGG
...((((((.((((((..((((((....))))))....(((((....))))).))))))(((((.(((((((......))))))..).)))))))))))... ( -33.80)
>DroEre_CAF1 81246 95 - 1
UCUUUUUCUGCAUUUACUUGGCCCGCUUGGGCCAGAAAAACUGUUGACAGUUAUAAAUGAUGGGGCUGGCUUUCCGUGGGGCCAACGGCUCAUAG-------
..........((((((.(((((((....)))))))...(((((....))))).))))))(((((.(((((((......))))))..).)))))..------- ( -32.10)
>DroYak_CAF1 84748 102 - 1
UGUUUUUCUGCAUUUGCUUGGCCCGUUUGGGCCACAAAAACUGUUGACAGUUAUAAAUGAUGGGGCUGGCUUACCGUGGGGCCAACGACUCAUAGGAAGUGG
...((((((.((((((..((((((....))))))....(((((....))))).))))))(((((..((((((......))))))....)))))))))))... ( -32.10)
>DroAna_CAF1 78487 89 - 1
UAUUUUCCAACAUUUACGUGGCACGUUCGGGCCACAAAAACUGUUGACAGUUAUAAAUGAUGGGGUUGCCG-----------CAGUGGCUC--AGGAAGUGG
...(((((..((((((.(((((.(....).)))))...(((((....))))).))))))...((((..(..-----------..)..))))--.)))))... ( -28.60)
>consensus
UUUUUUUCUGCAUUUACUUGGCCCGUUUGGGCCACAAAAACUGUUGACAGUUAUAAAUGAUGGGGCUGGCUUUCCGUGGGGCCAACGGCUCAUAGGAAGUGG
....((((((((((((..((((((....))))))....(((((....))))).))))))...((((((((((......))))))...)))).)))))).... (-26.74 = -28.12 +   1.38)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:50 2006