Locus 5371

Sequence ID 3R_DroMel_CAF1
Location 14,114,085 – 14,114,205
Length 120
Max. P 0.762781
window8753

overview

Window 3

Location 14,114,085 – 14,114,205
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.00
Mean single sequence MFE -52.17
Consensus MFE -26.60
Energy contribution -27.24
Covariance contribution 0.64
Combinations/Pair 1.41
Mean z-score -1.98
Structure conservation index 0.51
SVM decision value 0.51
SVM RNA-class probability 0.762781
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14114085 120 + 27905053
CGUGUCCAGCGGCGCUGUGGAGCGCAUGAAGUGCGACUUGGGCAGGAUGGGCAUGGUGCGCGGCGGCUGCUGGUAGCAGCAUCCUGCAUAGUCGCCGCAGUCGCAAGGCGGACACGUUGA
(((((((.((((((((((.((((((((...))))).)))..((((((((....((.(((.((((....))))))).)).)))))))))))).)))))).(((....)))))))))).... ( -65.40)
>DroPse_CAF1 2758 120 + 1
CGUAUCUAGAGGCGCCGUCGAGCGCAUGAAGUUGGAAACCGGCAGAAUGGGUCUGACGCGCGCCGGCUGCUGGUAGCAGCAGCCGUUGUAGUCCCCGCAAUCGCAUGGCGGGCACGACGA
..........((((((((((..(.(((...(((((...)))))...))).)..))))).)))))((((((((....))))))))(((((.((((((((....))..)).))))))))).. ( -59.10)
>DroGri_CAF1 3793 120 + 1
CGUGUCCAGAGGUGCAGUGGAGCGCAUAAAAUGUGUUUGCGGAAUAAUGGGAAGUGUGCGUGCCGGCUGCUGAUAGCAACAGCCGGAAUAGUCGCCACGAUCGCAUGGCUGACACAACGC
.(((((.((..((((.(..((.(((((...)))))))..)........((...(((.(((..(((((((.((....)).)))))))......))))))..))))))..)))))))..... ( -44.70)
>DroWil_CAF1 1646 120 + 1
CGUGUCCAAUGGAGCUGUUGAACGCAUGAAAUUCGAUACCGGCCGUAUGGGCAUAACACGCGGUGGCUGCUGAUAGCAGCAUCCCGAAUAAUCACCGCAGUCACAUGGUGGACACGCCGA
(((((((((((..(((((.(......(((.(((((......((((..((.......))..)))).(((((.....)))))....)))))..)))).)))))..)))..)))))))).... ( -41.70)
>DroAna_CAF1 1375 120 + 1
CGUGUCCAGAGGAGCCGUCGACCGCAUGAAGUUGGACUUGGGAAGAAUGGGCAUGGUGCGUGCCGGCUGCUGGUAGCAGCAUCCCGCAUAGUCGCCGCAAUCGCAAGGCGGACAGGUAGC
(.(((((......((.(.((((.((...(((.....)))((((......((((((...)))))).(((((.....))))).))))))...))))).))..((....)).))))).).... ( -43.00)
>DroPer_CAF1 1405 120 + 1
CGUAUCCAGAGGCGCCGUCGAGCGCAUGAAGUUGGAAACCGGCAGAAUGGGUCUGACGCGCGCCGGCUGCUGGUAGCAGCAGCCGUUGUAGUCCCCGCAAUCGCAUGGCGGGCACGACGA
..........((((((((((..(.(((...(((((...)))))...))).)..))))).)))))((((((((....))))))))(((((.((((((((....))..)).))))))))).. ( -59.10)
>consensus
CGUGUCCAGAGGCGCCGUCGAGCGCAUGAAGUUGGAAACCGGCAGAAUGGGCAUGACGCGCGCCGGCUGCUGGUAGCAGCAGCCGGAAUAGUCGCCGCAAUCGCAUGGCGGACACGACGA
(((((((...((((((((((..(.(((...................))).)..))))).)))))((.(((((....))))).)).........((((........))))))))))).... (-26.60 = -27.24 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:08 2006