Locus 5272

Sequence ID X_DroMel_CAF1
Location 13,794,845 – 13,794,944
Length 99
Max. P 0.776119
window8537 window8538

overview

Window 7

Location 13,794,845 – 13,794,944
Length 99
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 90.58
Mean single sequence MFE -16.44
Consensus MFE -13.69
Energy contribution -14.18
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.83
SVM decision value 0.27
SVM RNA-class probability 0.660195
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13794845 99 + 22224390
GCAAGCACACGGAUACAGAUACCAAUACCAAUGCAAAUCUACACAUUCGCACGCUCUUCAACUUGACUUUGAAAAAUGUUGACAGAGCGCAAAAAAAAA
....((...(((((..((((..((.......))...))))....)))))...((((((((((...............))))).)))))))......... ( -16.36)
>DroSec_CAF1 101589 92 + 1
GCAAACACACAGAUAC----GCCAAUACCAAUGCAAAUCUACACAUUCGCACGCUAUUCAACUUGACUUUGAAAAAUGUUGACAGAGCGCAAAU---AA
((........((((..----((..........))..))))............(((..(((((...............)))))...)))))....---.. ( -11.46)
>DroEre_CAF1 103850 91 + 1
GCAAGCACACAGAUAC----GCCAAUACCAAUGCAUAUCUAUACAUUCGCACGCUCUUCAACUUGACUUUGAAAAAUGUUGACAGAGCGCGAA----AA
..........(((((.----((..........)).))))).....(((((..((((((((((...............))))).))))))))))----.. ( -20.66)
>DroYak_CAF1 113142 92 + 1
GCUAGCACACAGAUAG----GCCAAUACCAAUGCAAAUCUAUACAUUCGCACGCUCUUCAACUUGACUUUGAAAAAUGUUGACAGAGCGCAAAA---AA
....((....((((..----((..........))..))))............((((((((((...............))))).)))))))....---.. ( -17.26)
>consensus
GCAAGCACACAGAUAC____GCCAAUACCAAUGCAAAUCUACACAUUCGCACGCUCUUCAACUUGACUUUGAAAAAUGUUGACAGAGCGCAAAA___AA
((.............................(((.(((......))).))).((((((((((...............))))).)))))))......... (-13.69 = -14.18 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 13,794,845 – 13,794,944
Length 99
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 90.58
Mean single sequence MFE -25.66
Consensus MFE -19.81
Energy contribution -19.81
Covariance contribution 0.00
Combinations/Pair 1.05
Mean z-score -1.95
Structure conservation index 0.77
SVM decision value 0.54
SVM RNA-class probability 0.776119
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13794845 99 - 22224390
UUUUUUUUUGCGCUCUGUCAACAUUUUUCAAAGUCAAGUUGAAGAGCGUGCGAAUGUGUAGAUUUGCAUUGGUAUUGGUAUCUGUAUCCGUGUGCUUGC
.........(((((((.(((((...............))))))))))))((((((......))))))...((((((((.........))).)))))... ( -22.96)
>DroSec_CAF1 101589 92 - 1
UU---AUUUGCGCUCUGUCAACAUUUUUCAAAGUCAAGUUGAAUAGCGUGCGAAUGUGUAGAUUUGCAUUGGUAUUGGC----GUAUCUGUGUGUUUGC
..---....(((((...(((((...............)))))..)))))(((((((..(((((.(((..........))----).)))))..))))))) ( -25.16)
>DroEre_CAF1 103850 91 - 1
UU----UUCGCGCUCUGUCAACAUUUUUCAAAGUCAAGUUGAAGAGCGUGCGAAUGUAUAGAUAUGCAUUGGUAUUGGC----GUAUCUGUGUGCUUGC
..----...(((((((.(((((...............))))))))))))((((.(..((((((((((..........))----))))))))..).)))) ( -29.76)
>DroYak_CAF1 113142 92 - 1
UU---UUUUGCGCUCUGUCAACAUUUUUCAAAGUCAAGUUGAAGAGCGUGCGAAUGUAUAGAUUUGCAUUGGUAUUGGC----CUAUCUGUGUGCUAGC
..---....(((((((.(((((...............))))))))))))((.((((((......)))))).)).(((((----(.......).))))). ( -24.76)
>consensus
UU___UUUUGCGCUCUGUCAACAUUUUUCAAAGUCAAGUUGAAGAGCGUGCGAAUGUAUAGAUUUGCAUUGGUAUUGGC____GUAUCUGUGUGCUUGC
.........(((((((.(((((...............))))))))))))((.((((((......)))))).)).......................... (-19.81 = -19.81 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:44 2006