Locus 2838

Sequence ID X_DroMel_CAF1
Location 7,567,276 – 7,567,390
Length 114
Max. P 0.961858
window4656 window4657

overview

Window 6

Location 7,567,276 – 7,567,390
Length 114
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 78.47
Mean single sequence MFE -29.07
Consensus MFE -22.35
Energy contribution -22.68
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.96
Structure conservation index 0.77
SVM decision value 1.53
SVM RNA-class probability 0.961858
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7567276 114 + 22224390
UCUCUUUAUCGAAA------AGUCGGCAACGAUAAUAGCGCCUAUCGAUGACGAUCAAGAAUAGGUGAUGGGCAUCGUUACCGAUACCGAUAUAGCGGUAGUUUAUCAACAAUCUCAGUC
.....(((((((..------.((((....))))..(((...)))))))))).(((..(((.....((((((((.(((....)))(((((......)))))))))))))....)))..))) ( -28.10)
>DroSec_CAF1 59681 113 + 1
UCUCUUUAUCGAAAUAUAUAGGUCGGCAACGAUAAUAGCGCUUAUCGAUGAUAAGCGA-------UGAUGGGCAUCGUUAUCGAUACCGAUAUAGCGGUAGUUUAUCAACAACAUUAGUC
.....................((((....)))).....((((((((...)))))))).-------((((((((((((((((((....)))))..))))).))))))))............ ( -31.40)
>DroSim_CAF1 53760 113 + 1
UCUCUUUAUCGAAAUAUAUAGGUCGGCCACGAUAAUAGUGCUUAUCGAUGAUAACCAA-------GGAUGGGCAUCGUUAUCGAUACCGAAAAACCGGUAAUUUAUCAACANNNNNNNNN
....................((....)).((((((..(((((((((..((.....)).-------.)))))))))..)))))).(((((......))))).................... ( -27.70)
>consensus
UCUCUUUAUCGAAAUAUAUAGGUCGGCAACGAUAAUAGCGCUUAUCGAUGAUAACCAA_______UGAUGGGCAUCGUUAUCGAUACCGAUAUAGCGGUAGUUUAUCAACAA__U_AGUC
.....(((((((.........((((....))))...........)))))))...............(((((((.(((....)))(((((......))))))))))))............. (-22.35 = -22.68 +   0.33)

alignment

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secondary structure

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dotplot

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Window 7

Location 7,567,276 – 7,567,390
Length 114
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 78.47
Mean single sequence MFE -28.67
Consensus MFE -18.10
Energy contribution -18.77
Covariance contribution 0.67
Combinations/Pair 1.06
Mean z-score -1.96
Structure conservation index 0.63
SVM decision value 0.74
SVM RNA-class probability 0.839343
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7567276 114 - 22224390
GACUGAGAUUGUUGAUAAACUACCGCUAUAUCGGUAUCGGUAACGAUGCCCAUCACCUAUUCUUGAUCGUCAUCGAUAGGCGCUAUUAUCGUUGCCGACU------UUUCGAUAAAGAGA
........(((((((.....(((((......)))))((((((((((((.....(.((((((..((.....))..)))))).)....))))))))))))..------..)))))))..... ( -33.90)
>DroSec_CAF1 59681 113 - 1
GACUAAUGUUGUUGAUAAACUACCGCUAUAUCGGUAUCGAUAACGAUGCCCAUCA-------UCGCUUAUCAUCGAUAAGCGCUAUUAUCGUUGCCGACCUAUAUAUUUCGAUAAAGAGA
..((....(((((((...............((((((.((((((.((((.....))-------))(((((((...)))))))....)))))).))))))..........)))))))..)). ( -27.61)
>DroSim_CAF1 53760 113 - 1
NNNNNNNNNUGUUGAUAAAUUACCGGUUUUUCGGUAUCGAUAACGAUGCCCAUCC-------UUGGUUAUCAUCGAUAAGCACUAUUAUCGUGGCCGACCUAUAUAUUUCGAUAAAGAGA
.........((((((.....((..((((....(((((((....))))))).....-------..(((((....((((((......)))))))))))))))..))....))))))...... ( -24.50)
>consensus
GACU_A__UUGUUGAUAAACUACCGCUAUAUCGGUAUCGAUAACGAUGCCCAUCA_______UUGAUUAUCAUCGAUAAGCGCUAUUAUCGUUGCCGACCUAUAUAUUUCGAUAAAGAGA
........(((((((.....(((((......)))))(((.((((((((...(((..........)))...))))(((((......))))))))).)))..........)))))))..... (-18.10 = -18.77 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:45 2006