Locus 5417

Sequence ID 3L_DroMel_CAF1
Location 14,842,817 – 14,842,922
Length 105
Max. P 0.823297
window8574

overview

Window 4

Location 14,842,817 – 14,842,922
Length 105
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.52
Mean single sequence MFE -46.29
Consensus MFE -23.87
Energy contribution -24.29
Covariance contribution 0.42
Combinations/Pair 1.30
Mean z-score -1.92
Structure conservation index 0.52
SVM decision value 0.69
SVM RNA-class probability 0.823297
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14842817 105 + 23771897
--------GC-------AGCCUGGGGAGCCCCCUCACCACCCCACUCGCUGACGGUGGUGGCCCACAGCGCCACCUGGAUGCAGCUCACCUGGCAGCCGCCAGAGUACGCCCAUCCGCAU
--------.(-------(((.(((((.............)))))...))))..(((((((........))))))).(((((..((..(((((((....))))).))..)).))))).... ( -42.12)
>DroVir_CAF1 40085 113 + 1
A-------UCAGAACGGAACCUGGGGCGCGCCAUCGCCGCCUCACUCUCUGACCGUGCUAACACAUAGCGCGACCUGGAUGCAGCUGACCUGGCAGCCGUCAGAGUAUUCGCAUCCGCAC
.-------......((((...(((((((.((....)))))))))...))))..(((((((.....)))))))....((((((.....(((((((....))))).))....)))))).... ( -43.60)
>DroPse_CAF1 75268 113 + 1
GGGAGGGCAC-------CACCUGGGGCUCACCCUCGCCACCACACUCGCUGACUGUGGUGGCGCACAGUGCCACAUGGAUGCAGCUGAUCUGGCAGCCGCCAGAGUACGCCCAUCCCCAU
((((((((.(-------((..(((.(((......((((((((((.((...)).))))))))))...))).)))..)))..........((((((....))))))....)))).))))... ( -54.60)
>DroWil_CAF1 175724 112 + 1
--------GCAAAAUGGUACCUGGGCUGCCCCCUCACCACCGCACUCCCUUACUGUGGCGGGUCACAGCGCCACAUGGAUGCAAUUGACUUGGCAGCCGCCGGAAUAUGCGCAUCCACAC
--------(((...((((.....(((((((...(((.....(((.(((.....(((((((........))))))).))))))...)))...))))))))))).....))).......... ( -36.80)
>DroAna_CAF1 14070 113 + 1
GUGAAGGCGU-------CGCCUGGGGCGCCCCCUCGCCACCACACUCGCUGACGGUGGUGGCGCACAGUGCCACCUGGAUGCAGUUAACGUGGCAGCCACCAGAGUACGCCCAUCCGCAC
(((..(((((-------.(((((((((.......(((((((((.(........)))))))))).....(((((((((....))).....))))))))).)))).)))))))....))).. ( -50.50)
>DroPer_CAF1 72732 113 + 1
GCGAGGGCAC-------CACCUGGGGCUCACCCUCGCCACCACACUCGCUGACUGUGGUGGCGCACAGUGCCACAUGGAUGCAGCUGAUCUGGCAGCCGCCAGAGUACGCCCAUCCCCAU
.....(((((-------.....(((.....))).((((((((((.((...)).))))))))))....)))))....(((((..((...((((((....))))))....)).))))).... ( -50.10)
>consensus
G_______GC_______CACCUGGGGCGCCCCCUCGCCACCACACUCGCUGACUGUGGUGGCGCACAGCGCCACAUGGAUGCAGCUGACCUGGCAGCCGCCAGAGUACGCCCAUCCGCAC
......................((((((......)))).))............(((((((........))))))).(((((........(((((....)))))........))))).... (-23.87 = -24.29 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:52 2006