Locus 5012

Sequence ID X_DroMel_CAF1
Location 13,119,531 – 13,119,630
Length 99
Max. P 0.933434
window8164 window8165

overview

Window 4

Location 13,119,531 – 13,119,630
Length 99
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 84.09
Mean single sequence MFE -25.88
Consensus MFE -17.86
Energy contribution -17.93
Covariance contribution 0.06
Combinations/Pair 1.12
Mean z-score -2.19
Structure conservation index 0.69
SVM decision value 0.96
SVM RNA-class probability 0.889457
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13119531 99 + 22224390
AAUCCACGACUAUUAGAGCUGGAACCACAUCGAUAUCUGUUCGAUACUAUCGAUACGGUCGUAGAAUUGGAAA-AUCGAUAAGUCUCUUGGAACAUCGAU
..((((.((((......(.((....)))((((((.....((((((.(((.((((...))))))).))))))..-)))))).))))...))))........ ( -20.50)
>DroSec_CAF1 20731 99 + 1
AUUCCACGACUAUUAGAGCUGGAACCACAUCGAUAUCUAUUCGAUGCUAUCGAUGUGGUCGUAGGAUUGGAAA-UACGAUGAAUCUCUUGGAACAUCGAU
.((((((........)..(((..((((((((((((.(........).))))))))))))..)))...))))).-..(((((..((....))..))))).. ( -29.40)
>DroSim_CAF1 31826 98 + 1
AUUCCACGACUAUUAGAGCUGGAACCACAUCGAUAUCUAUUCGAUGCUAUCGAUGUGGUCGUAA-AUUGAAAA-UACGAUGAAUCUCUUGGAACAUCGAU
..((((.(.((.....)))))))((((((((((((.(........).)))))))))))).....-........-..(((((..((....))..))))).. ( -26.50)
>DroYak_CAF1 20943 99 + 1
AUUCCACGACUAUUAGAGAUGGAACCACAUCGAUAUCUAUUCGGU-CUAUCGAUGUUUUUAAAGAGUUAGAAACAUCGAUGUUGUUCUUGACUAAUCGAU
......(((...((((....(((((.(((((((.......)))))-..((((((((((((((....)))))))))))))))).)))))...))))))).. ( -27.10)
>consensus
AUUCCACGACUAUUAGAGCUGGAACCACAUCGAUAUCUAUUCGAUGCUAUCGAUGUGGUCGUAGAAUUGGAAA_AACGAUGAAUCUCUUGGAACAUCGAU
..(((((..........).))))((((((((((((((.....))...)))))))))))).................((((...((.....))..)))).. (-17.86 = -17.93 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 13,119,531 – 13,119,630
Length 99
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 84.09
Mean single sequence MFE -25.08
Consensus MFE -20.02
Energy contribution -19.28
Covariance contribution -0.75
Combinations/Pair 1.32
Mean z-score -2.13
Structure conservation index 0.80
SVM decision value 1.23
SVM RNA-class probability 0.933434
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13119531 99 - 22224390
AUCGAUGUUCCAAGAGACUUAUCGAU-UUUCCAAUUCUACGACCGUAUCGAUAGUAUCGAACAGAUAUCGAUGUGGUUCCAGCUCUAAUAGUCGUGGAUU
(((((((.((.....))..)))))))-........((((((((((((((((((...((.....))))))))))))((....)).......)))))))).. ( -23.30)
>DroSec_CAF1 20731 99 - 1
AUCGAUGUUCCAAGAGAUUCAUCGUA-UUUCCAAUCCUACGACCACAUCGAUAGCAUCGAAUAGAUAUCGAUGUGGUUCCAGCUCUAAUAGUCGUGGAAU
..(((((.((.....))..)))))..-.(((((...(((.(((((((((((((.(........).)))))))))))))..........)))...))))). ( -27.00)
>DroSim_CAF1 31826 98 - 1
AUCGAUGUUCCAAGAGAUUCAUCGUA-UUUUCAAU-UUACGACCACAUCGAUAGCAUCGAAUAGAUAUCGAUGUGGUUCCAGCUCUAAUAGUCGUGGAAU
......((((((...((((..(((((-........-.)))))(((((((((((.(........).))))))))))).............)))).)))))) ( -27.80)
>DroYak_CAF1 20943 99 - 1
AUCGAUUAGUCAAGAACAACAUCGAUGUUUCUAACUCUUUAAAAACAUCGAUAG-ACCGAAUAGAUAUCGAUGUGGUUCCAUCUCUAAUAGUCGUGGAAU
((((((..(((.........((((((((((.(((....))).))))))))))..-........)))))))))...(((((((..(.....)..))))))) ( -22.21)
>consensus
AUCGAUGUUCCAAGAGAUUCAUCGAA_UUUCCAAUUCUACGACCACAUCGAUAGCAUCGAAUAGAUAUCGAUGUGGUUCCAGCUCUAAUAGUCGUGGAAU
..(((((.((.....))..)))))....(((((...(((.(((((((((((((............)))))))))))))..........)))...))))). (-20.02 = -19.28 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:09 2006