Locus 6666

Sequence ID 2L_DroMel_CAF1
Location 18,698,878 – 18,698,972
Length 94
Max. P 0.773177
window10629 window10630

overview

Window 9

Location 18,698,878 – 18,698,972
Length 94
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 81.36
Mean single sequence MFE -25.83
Consensus MFE -15.64
Energy contribution -16.83
Covariance contribution 1.20
Combinations/Pair 1.23
Mean z-score -1.66
Structure conservation index 0.61
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18698878 94 + 22407834
CCGCUCCUAGUGACGCCGCGCGA-UCAUGAGCUUAUCAAUGCUAAUUGUUGCUCAACGAUGAUUCACGCGCGCACUGUGCAUUUUAUGAUUUUUU
..((...(((((.(((.(((.((-((((((((....((((....))))..)))))....))).)).))))))))))).))............... ( -28.20)
>DroVir_CAF1 4608 74 + 1
ACGUUAUUGUUGGCGC-GCCUGACACAUGUGUUAAU----AUUGGUAAU-----AACGAUGAUUCACGCGCGCACUA-GCAUUUU----------
.......(((((((((-((.(((..(((.(((((.(----(....)).)-----)))))))..))).)))))).).)-)))....---------- ( -20.40)
>DroSec_CAF1 3944 91 + 1
CCGCUGCUAGUGGCGCCGCGCGA-UCAUGAGUUAAUCAAUGCUAAUUGUUGCUCAACGAUGAUUCACGCGCGCACUGUGCAUUUUAUGAGUU---
....((((((((.(((.(((.((-((((((((....((((....))))..)))))....))).)).))))))))))).)))...........--- ( -27.90)
>DroSim_CAF1 3968 91 + 1
CCGCUGCUAGUGGCGCCGCGCGA-UCAUGAGUUAAUCAAUGCUAAUUGUUGCUCAACGAUGAUUCACGCGCGCACUGUGCAUUUUAUGAGUU---
....((((((((.(((.(((.((-((((((((....((((....))))..)))))....))).)).))))))))))).)))...........--- ( -27.90)
>DroEre_CAF1 3896 91 + 1
CCGCUGCUAGUGACGUCGCACGA-UCAUGAGUUAAUCAAUGUUAAUUGUUGCUCAACGAUGAUUCACGCGCGCACUGGCCAUUUUAUGAGUU---
.....(((((((.((.(((..((-((((((((....((((....))))..)))))....)))))...)))))))))))).............--- ( -27.10)
>DroYak_CAF1 3912 89 + 1
CCGCUGCUAGUGACGUCGCACGA-UCAUGAGUUAAUCAAUGUUAGUUGUUGCUCAACGAUGAUUCACGCGCGCACUG--CAUUUUAUGAGUU---
....(((.((((.((.(((..((-((((((((....((((....))))..)))))....)))))...))))))))))--))...........--- ( -23.50)
>consensus
CCGCUGCUAGUGACGCCGCGCGA_UCAUGAGUUAAUCAAUGCUAAUUGUUGCUCAACGAUGAUUCACGCGCGCACUGUGCAUUUUAUGAGUU___
..((...(((((.(((.((..((.((((((((....((((....))))..)))))....))).))..)))))))))).))............... (-15.64 = -16.83 +   1.20)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,698,878 – 18,698,972
Length 94
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 81.36
Mean single sequence MFE -24.62
Consensus MFE -18.08
Energy contribution -19.22
Covariance contribution 1.14
Combinations/Pair 1.12
Mean z-score -1.74
Structure conservation index 0.73
SVM decision value 0.54
SVM RNA-class probability 0.773177
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18698878 94 - 22407834
AAAAAAUCAUAAAAUGCACAGUGCGCGCGUGAAUCAUCGUUGAGCAACAAUUAGCAUUGAUAAGCUCAUGA-UCGCGCGGCGUCACUAGGAGCGG
..............(((.((((((((((((((.(((....(((((..((((....))))....))))))))-)))))).))).)))).)..))). ( -28.20)
>DroVir_CAF1 4608 74 - 1
----------AAAAUGC-UAGUGCGCGCGUGAAUCAUCGUU-----AUUACCAAU----AUUAACACAUGUGUCAGGC-GCGCCAACAAUAACGU
----------.......-..(.((((((.(((..(((.(((-----(........----..))))..)))..))).))-)))))........... ( -19.40)
>DroSec_CAF1 3944 91 - 1
---AACUCAUAAAAUGCACAGUGCGCGCGUGAAUCAUCGUUGAGCAACAAUUAGCAUUGAUUAACUCAUGA-UCGCGCGGCGCCACUAGCAGCGG
---...........(((..(((((((((((((.((((.(((((....((((....)))).)))))..))))-)))))).))).)))).))).... ( -26.90)
>DroSim_CAF1 3968 91 - 1
---AACUCAUAAAAUGCACAGUGCGCGCGUGAAUCAUCGUUGAGCAACAAUUAGCAUUGAUUAACUCAUGA-UCGCGCGGCGCCACUAGCAGCGG
---...........(((..(((((((((((((.((((.(((((....((((....)))).)))))..))))-)))))).))).)))).))).... ( -26.90)
>DroEre_CAF1 3896 91 - 1
---AACUCAUAAAAUGGCCAGUGCGCGCGUGAAUCAUCGUUGAGCAACAAUUAACAUUGAUUAACUCAUGA-UCGUGCGACGUCACUAGCAGCGG
---.............((.(((((((((((((.((((.(((((....((((....)))).)))))..))))-))))))).)).)))).))..... ( -23.00)
>DroYak_CAF1 3912 89 - 1
---AACUCAUAAAAUG--CAGUGCGCGCGUGAAUCAUCGUUGAGCAACAACUAACAUUGAUUAACUCAUGA-UCGUGCGACGUCACUAGCAGCGG
---...........((--((((((((((((((.((((.(((((.(((.........))).)))))..))))-))))))).)).)))).))).... ( -23.30)
>consensus
___AACUCAUAAAAUGCACAGUGCGCGCGUGAAUCAUCGUUGAGCAACAAUUAACAUUGAUUAACUCAUGA_UCGCGCGGCGCCACUAGCAGCGG
...................(((((((((((((.((((.(((((.(((.........))).)))))..)))).))))))).)).))))........ (-18.08 = -19.22 +   1.14)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:48 2006