Locus 3861

Sequence ID 2R_DroMel_CAF1
Location 12,765,046 – 12,765,141
Length 95
Max. P 0.500000
window6240

overview

Window 0

Location 12,765,046 – 12,765,141
Length 95
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 80.39
Mean single sequence MFE -25.87
Consensus MFE -16.72
Energy contribution -17.50
Covariance contribution 0.78
Combinations/Pair 1.15
Mean z-score -1.33
Structure conservation index 0.65
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12765046 95 + 20766785
AAGAAGAGCGCCACAGUUGGUUUGAGUUCGGCAUAAGCACGGCGCCAGCAAAGUUGUAAAAUCGCCAAAUGGCAUAUAAAA--------------AUUGCUGGAA--UUGU---
.....((((((((....))))....)))).((....))((((..(((((((..(((((.....(((....))).)))))..--------------.)))))))..--))))--- ( -24.30)
>DroVir_CAF1 143196 109 + 1
GACGAGCGCGCCACAGUUGGUUUGGGUUUGGCAUAAGUCAGGCGCCAGCAAAGUUGUAAAAUCGCCAAAUGGCUUAUAAAACCAAACAAAAAAAAAAUGCUGGAA--UUGU---
..(.((((.((((....))))....((((((.((((((((((((...(((....))).....))))...))))))))....))))))..........)))).)..--....--- ( -26.90)
>DroPse_CAF1 100338 97 + 1
GGGUGGAGCGCCACAGUUGGUUUGGGUACGGCAUAAGCCAGGCGCCAGCAAAGUUGUAAAAUCGGCAAAUGGCAUAUAAAA--------------AUCGUUGGGUUUUUGU---
.........((((..((((((....((..(((....)))..))))))))...((((......))))...))))..((((((--------------(((....)))))))))--- ( -26.10)
>DroGri_CAF1 123467 100 + 1
GACGAGCGCGCCACAGUUGGUUUGGGUUUGGCAUAAGGCAGGCGCCAGCAAAGUUGUAAAAUCGGCAAAUGGCAUAUAAAAAAA-GA--------AAUGCUCGAA--AUGU---
..(((((..((((..((((((....(((((.(....).)))))))))))...((((......))))...))))..........(-..--------..))))))..--....--- ( -28.40)
>DroWil_CAF1 163585 95 + 1
AGGCCAAGCGCCACAGUUGGUUUGGGUAUGGCAUAAGUCAGGCGCCAGGAAAGCUGUAAAAUCGGUAAAUGGCAUAUAAAA--------------AUCGUUGAAA--UUGU---
..((((...(((((((((..(((((((.((((....)))).)).)))))..))))))......)))...))))........--------------..........--....--- ( -25.80)
>DroAna_CAF1 98768 95 + 1
AA---GAGCGCCACAGUUGGUUUGGGUUCGGCAUAAGCCAGGCGCCAGCAAAGUUGUAAAAUCGGCAAAUGGCAUAUAAAA--------------AUCGCUGGAA--UUGUUGU
..---..(((((.(((.....))).....(((....))).)))))((((((.((((......))))....(((........--------------...)))....--)))))). ( -23.70)
>consensus
AAGGAGAGCGCCACAGUUGGUUUGGGUUCGGCAUAAGCCAGGCGCCAGCAAAGUUGUAAAAUCGGCAAAUGGCAUAUAAAA______________AUCGCUGGAA__UUGU___
.........((((..((((((....(((.(((....))).)))))))))...((((......))))...))))......................................... (-16.72 = -17.50 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:53 2006