Locus 7768

Sequence ID 3L_DroMel_CAF1
Location 20,727,512 – 20,727,622
Length 110
Max. P 0.957550
window12647 window12648

overview

Window 7

Location 20,727,512 – 20,727,622
Length 110
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 87.12
Mean single sequence MFE -27.27
Consensus MFE -20.40
Energy contribution -21.27
Covariance contribution 0.88
Combinations/Pair 1.15
Mean z-score -2.67
Structure conservation index 0.75
SVM decision value 1.48
SVM RNA-class probability 0.957550
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20727512 110 + 23771897
UAAAUAAUUGACAAAAAUGUAGAGCUCUAGACUUGAAUUUGUCUAUGUAUGCAUAUAUGUGUGUACUUACAUAGGUAUAAAGUCAGACGCGAUGCAAUUUGAUGCUCGAC
.......((((((.(((((((..(((((.(((((.....(..(((((((((((((....))))))..)))))))..)..)))))))).))..))).))))..)).)))). ( -28.60)
>DroSec_CAF1 2999 110 + 1
UAAAUAAUUGAUAAAAAUGUCGAGCUCUAGACUUGAAUUUGUCUAUGUAUGCAUAUAUGUAUGUACUUACAUAGGUAUAAAGUCAGACGCGAUGCAAUUUGAUGCUCGAC
..................((((((((((.(((((.....(..(((((((((((((....))))))..)))))))..)..)))))))).((...))........))))))) ( -29.90)
>DroSim_CAF1 5349 110 + 1
UAAAUAAUUGACAAAAAUGUCCAGCUCUAGACUUGAAUUUGUCUAUGUAUGCAUAUAUGUAUGUACUUACAUAGGUAUAAAGUCAGACGCGAUGCAAUUUGAUGCUCGAC
.........((((....))))..(((((.(((((.....(..(((((((((((((....))))))..)))))))..)..)))))))).))((.(((......)))))... ( -27.50)
>DroEre_CAF1 4629 93 + 1
UAAUUAAUUGACAAACAUGUUGAGUUCCAAACUUGAAUUUGCCUCUGUAUGCA-----------------AUAGGUAUAAAGUCAGACGCGAUGCAAUUUGAUGCUCGAC
..................(((((((..((((.(((...((((.(((((((((.-----------------....)))))....)))).))))..)))))))..))))))) ( -23.10)
>consensus
UAAAUAAUUGACAAAAAUGUCGAGCUCUAGACUUGAAUUUGUCUAUGUAUGCAUAUAUGUAUGUACUUACAUAGGUAUAAAGUCAGACGCGAUGCAAUUUGAUGCUCGAC
..................(((((((..((((.(((.((((((((...(((((...((((((......)))))).))))).....))))).))).)))))))..))))))) (-20.40 = -21.27 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 20,727,512 – 20,727,622
Length 110
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 87.12
Mean single sequence MFE -20.84
Consensus MFE -13.97
Energy contribution -16.34
Covariance contribution 2.37
Combinations/Pair 1.07
Mean z-score -1.61
Structure conservation index 0.67
SVM decision value 0.02
SVM RNA-class probability 0.543263
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20727512 110 - 23771897
GUCGAGCAUCAAAUUGCAUCGCGUCUGACUUUAUACCUAUGUAAGUACACACAUAUAUGCAUACAUAGACAAAUUCAAGUCUAGAGCUCUACAUUUUUGUCAAUUAUUUA
((.((((.((....(((((...((.(((((((((....))).)))).)).))....)))))....(((((........))))))))))).)).................. ( -19.70)
>DroSec_CAF1 2999 110 - 1
GUCGAGCAUCAAAUUGCAUCGCGUCUGACUUUAUACCUAUGUAAGUACAUACAUAUAUGCAUACAUAGACAAAUUCAAGUCUAGAGCUCGACAUUUUUAUCAAUUAUUUA
(((((((........((...)).((((((((.....(((((((.(((.((....)).))).)))))))........))))).)))))))))).................. ( -26.02)
>DroSim_CAF1 5349 110 - 1
GUCGAGCAUCAAAUUGCAUCGCGUCUGACUUUAUACCUAUGUAAGUACAUACAUAUAUGCAUACAUAGACAAAUUCAAGUCUAGAGCUGGACAUUUUUGUCAAUUAUUUA
...(((((......))).))((.((((((((.....(((((((.(((.((....)).))).)))))))........))))).)))))..((((....))))......... ( -23.22)
>DroEre_CAF1 4629 93 - 1
GUCGAGCAUCAAAUUGCAUCGCGUCUGACUUUAUACCUAU-----------------UGCAUACAGAGGCAAAUUCAAGUUUGGAACUCAACAUGUUUGUCAAUUAAUUA
((.(((..(((((((.....((.((((.............-----------------......)))).)).......)))))))..))).)).................. ( -14.41)
>consensus
GUCGAGCAUCAAAUUGCAUCGCGUCUGACUUUAUACCUAUGUAAGUACAUACAUAUAUGCAUACAUAGACAAAUUCAAGUCUAGAGCUCGACAUUUUUGUCAAUUAUUUA
(((((((........((...)).((((((((.....(((((((.(((..........))).)))))))........))))).)))))))))).................. (-13.97 = -16.34 +   2.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:28 2006