Locus 1716

Sequence ID 2R_DroMel_CAF1
Location 6,473,724 – 6,473,830
Length 106
Max. P 0.543482
window2867

overview

Window 7

Location 6,473,724 – 6,473,830
Length 106
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 82.60
Mean single sequence MFE -40.12
Consensus MFE -23.13
Energy contribution -22.69
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -2.00
Structure conservation index 0.58
SVM decision value 0.02
SVM RNA-class probability 0.543482
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6473724 106 - 20766785
AUAACAAGGAAAAGAGACAGCCAGAUGGCGAGCGAAAGAGAUGGCGGGCGA---------GGCUUCCUUGGCUUCGUGCAACUUCCGUUGCCUUCUGGUAAGUUGCC----UGCUUUCU
......(((((.((.(((.((((((.(((.((((.(((.(....)(.((((---------((((.....)))))))).)..))).))))))).))))))..)))..)----)..))))) ( -36.50)
>DroSec_CAF1 41833 108 - 1
AUAACAAGGAAAAGAGACAGCCAGAUGGCGAGCGAAAGAGAGGGCAC--GC---------GGCUUCCUUGGCUUCGUGCAACUUCCGCUGCCUUCUGGUAAGUUGCCUGCCUGCUUUCU
......(((...((.(((.((((((.(((.((((.(((.....((((--(.---------((((.....)))).)))))..))).))))))).))))))..)))..)).)))....... ( -41.00)
>DroEre_CAF1 40101 105 - 1
AUAACAAGGA-AAGAGACAGCUUGAUGGGGAGCGAAAGAGAGGGC---------AGCUCGUGCUGGCUUGGCUUCGUGCAACUUCCGCUGCCUUCUGGUAAGUUGCC----UGUUUUCU
......((((-((.((.(((((((..(((.((((.(((..(((.(---------(((....)))).))).((.....))..))).)))).))).....))))))).)----).)))))) ( -38.60)
>DroYak_CAF1 44488 114 - 1
AUAACAAGGA-AAGAGACAGCUAGACGGGGAGCGAAAGAGAGAGCGCACGAGGCUUCCUGGGCUUCCUUGGCUUCGUGCAACUUCCGCUGCUUUCUGGUAAGUUGCC----UGUUUUCU
......((((-((.((.(((((...(((..((((...(..((...((((((((((....((....))..))))))))))..))..)..))))..)))...))))).)----).)))))) ( -44.40)
>consensus
AUAACAAGGA_AAGAGACAGCCAGAUGGCGAGCGAAAGAGAGGGCGC__GA_________GGCUUCCUUGGCUUCGUGCAACUUCCGCUGCCUUCUGGUAAGUUGCC____UGCUUUCU
..............(((.(((..........(((((.(((..(((................)))..)))...)))))((((((((((........))).)))))))......))).))) (-23.13 = -22.69 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:31 2006