Locus 804

Sequence ID X_DroMel_CAF1
Location 2,242,749 – 2,242,850
Length 101
Max. P 0.804382
window1301 window1302

overview

Window 1

Location 2,242,749 – 2,242,850
Length 101
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 85.29
Mean single sequence MFE -34.15
Consensus MFE -22.34
Energy contribution -22.27
Covariance contribution -0.06
Combinations/Pair 1.12
Mean z-score -1.87
Structure conservation index 0.65
SVM decision value 0.29
SVM RNA-class probability 0.668354
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2242749 101 + 22224390
UCUGCGCUGCGGUUGCUAACCAUAAAAUUGAGCGGGUCCUUUAGACAAGGAGUCUUAAAGGAUGCUCUAUGGCUCUACGGUCUGAGAUCUGCGAUUUGCGU
...((((...((((((...(((((.....((((..(((((((((((.....))).)))))))))))))))))(((........)))....)))))).)))) ( -32.00)
>DroSec_CAF1 5727 101 + 1
UCUGCGCUGCGGUUGCCAACCAUAAAAUUGAGCGGGUCCUUUGGACAAGGAGUCUUAAAGGAUGCUCUGUGGCUCUAUGGUCUGAGAUCUGCGAUGUGCGU
...(((((((((...(((((((((..((.((((..(((((((((((.....))).)))))))))))).)).....)))))).)).)..)))))..)))).. ( -33.90)
>DroEre_CAF1 5947 100 + 1
UCUGCGCUGCGGUUGCCAACCAUAAAAUUGAGCGGGUCCUUUGGACAAGGAGUCUUAAAGGAUGCUCUAUGG-UCUGCGAUCGGCGAUCCGCGAUGUGCGU
...((((..(((((((..((((((.....((((..(((((((((((.....))).)))))))))))))))))-)..)))))))(((...)))...)))).. ( -39.60)
>DroYak_CAF1 6226 86 + 1
UCUGCGCUGCGGUUGCCAACCAUAAAAUUGAGCGGCUCCUUUGGACAAGGUUUCCUUAAGGAUGCUCUAUGG-UCUGCGAUC--------------UGCGU
...((((...((((((..((((((.....(((((..(((((.(((.......)))..)))))))))))))))-)..))))))--------------.)))) ( -31.10)
>consensus
UCUGCGCUGCGGUUGCCAACCAUAAAAUUGAGCGGGUCCUUUGGACAAGGAGUCUUAAAGGAUGCUCUAUGG_UCUACGAUCUGAGAUCUGCGAUGUGCGU
...((((.((....))...(((((.....(((((..((((((((((.....)))).)))))))))))))))).........................)))) (-22.34 = -22.27 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 2,242,749 – 2,242,850
Length 101
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 85.29
Mean single sequence MFE -28.05
Consensus MFE -22.51
Energy contribution -23.45
Covariance contribution 0.94
Combinations/Pair 1.11
Mean z-score -1.80
Structure conservation index 0.80
SVM decision value 0.63
SVM RNA-class probability 0.804382
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2242749 101 - 22224390
ACGCAAAUCGCAGAUCUCAGACCGUAGAGCCAUAGAGCAUCCUUUAAGACUCCUUGUCUAAAGGACCCGCUCAAUUUUAUGGUUAGCAACCGCAGCGCAGA
.(((...............((((((((((.....((((.(((((((.(((.....))))))))))...))))..)))))))))).((....)).))).... ( -29.40)
>DroSec_CAF1 5727 101 - 1
ACGCACAUCGCAGAUCUCAGACCAUAGAGCCACAGAGCAUCCUUUAAGACUCCUUGUCCAAAGGACCCGCUCAAUUUUAUGGUUGGCAACCGCAGCGCAGA
.(((...............((((((((((.....((((.((((((..(((.....))).))))))...))))..)))))))))).((....)).))).... ( -26.90)
>DroEre_CAF1 5947 100 - 1
ACGCACAUCGCGGAUCGCCGAUCGCAGA-CCAUAGAGCAUCCUUUAAGACUCCUUGUCCAAAGGACCCGCUCAAUUUUAUGGUUGGCAACCGCAGCGCAGA
..((.(...((((...((((((((.(((-..((.((((.((((((..(((.....))).))))))...)))).))))).))))))))..)))).).))... ( -32.00)
>DroYak_CAF1 6226 86 - 1
ACGCA--------------GAUCGCAGA-CCAUAGAGCAUCCUUAAGGAAACCUUGUCCAAAGGAGCCGCUCAAUUUUAUGGUUGGCAACCGCAGCGCAGA
.(((.--------------(...((.((-(((((((((.(((....)))..((((.....))))....)))).....))))))).)).....).))).... ( -23.90)
>consensus
ACGCACAUCGCAGAUCUCAGACCGCAGA_CCAUAGAGCAUCCUUUAAGACUCCUUGUCCAAAGGACCCGCUCAAUUUUAUGGUUGGCAACCGCAGCGCAGA
.(((...............(((((((((......((((.((((((.((((.....))))))))))...))))...))))))))).((....)).))).... (-22.51 = -23.45 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:12 2006