Locus 4775

Sequence ID X_DroMel_CAF1
Location 12,408,459 – 12,408,598
Length 139
Max. P 0.933018
window7816 window7817

overview

Window 6

Location 12,408,459 – 12,408,563
Length 104
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 85.59
Mean single sequence MFE -27.11
Consensus MFE -19.15
Energy contribution -18.26
Covariance contribution -0.88
Combinations/Pair 1.11
Mean z-score -3.11
Structure conservation index 0.71
SVM decision value 1.23
SVM RNA-class probability 0.933018
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12408459 104 + 22224390
GUAUGUGUAAUUUUAGAACUUGGCACGAAACAUGUUUCUAUGUAUAUUUUGUGUUGUGCACAU----AUAAACACGUAGCAUGUACUUGUACAUAUGUAUAUG------UACAU
(((((((((............(((((((((((((....)))))....)))))))).)))))))----))...........((((((.(((((....))))).)------))))) ( -24.92)
>DroEre_CAF1 2535 104 + 1
AUAUGUGUAAUUUUAGAACUUGGCACGAAACGUGUUUCUAUGUAUAUUUCGUGUUGUGCACAUAUAUAUAAACACGUAGCAUGUACUUCUACAUAUGUACAUAA----------
...((((((....(((((....(((.(..(((((((..(((((((((...(((.....)))))))))))))))))))..).)))..)))))......)))))).---------- ( -26.00)
>DroYak_CAF1 2482 110 + 1
GUAUGUGUAAUUUUAGAACUUGGCACGAAACAUGUUUCUAUGUAUAUUUUGUGUUGUGUACAU----AUAAACACGUAGAAUGUACUUGUACAUAUGUACAUACAUACAUACAA
((((((((.............(((((((((((((....)))))....))))))))((((((((----((..(((.(((.....))).)))..))))))))))..)))))))).. ( -30.40)
>consensus
GUAUGUGUAAUUUUAGAACUUGGCACGAAACAUGUUUCUAUGUAUAUUUUGUGUUGUGCACAU____AUAAACACGUAGCAUGUACUUGUACAUAUGUACAUA______UACA_
.(((((((....(((.....((((((((.(((.................))).)))))).))......))))))))))..((((((..........))))))............ (-19.15 = -18.26 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 12,408,496 – 12,408,598
Length 102
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 83.49
Mean single sequence MFE -20.56
Consensus MFE -16.35
Energy contribution -15.69
Covariance contribution -0.66
Combinations/Pair 1.12
Mean z-score -1.68
Structure conservation index 0.80
SVM decision value 0.20
SVM RNA-class probability 0.633038
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12408496 102 + 22224390
CUAUGUAUAUUUUGUGUUGUGCACAU----AUAAACACGUAGCAUGUACUUGUACAUAUGUAUAUG------UACAUAUACCCACAUUCACUUAUUACUUGGCAACGCCGGC
((((((......((((.....)))).----......)))))).((((((.(((((....))))).)------))))).....................(((((...))))). ( -21.22)
>DroEre_CAF1 2572 100 + 1
CUAUGUAUAUUUCGUGUUGUGCACAUAUAUAUAAACACGUAGCAUGUACUUCUACAUAUGUACAUAA------------AUUCACAUUCACUUAUUACUUGGCAACGCCGGC
.(((((((((..((((((...............))))))....(((((....)))))))))))))).------------...................(((((...))))). ( -16.86)
>DroYak_CAF1 2519 108 + 1
CUAUGUAUAUUUUGUGUUGUGUACAU----AUAAACACGUAGAAUGUACUUGUACAUAUGUACAUACAUACAUACAAAUAUCCACAUUCACUUAUUACUUGGCGACGCCGGC
..((((((((((((((((((((((((----((..(((.(((.....))).)))..)))))))))))...))))).))))))..))))...........(((((...))))). ( -23.60)
>consensus
CUAUGUAUAUUUUGUGUUGUGCACAU____AUAAACACGUAGCAUGUACUUGUACAUAUGUACAUA______UACA_AUAUCCACAUUCACUUAUUACUUGGCAACGCCGGC
.(((((((((..((((((...............))))))....(((((....))))))))))))))................................(((((...))))). (-16.35 = -15.69 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:52 2006