Locus 397

Sequence ID 2R_DroMel_CAF1
Location 2,378,484 – 2,378,593
Length 109
Max. P 0.500000
window779

overview

Window 9

Location 2,378,484 – 2,378,593
Length 109
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.43
Mean single sequence MFE -36.58
Consensus MFE -23.97
Energy contribution -23.58
Covariance contribution -0.39
Combinations/Pair 1.23
Mean z-score -1.40
Structure conservation index 0.66
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2378484 109 - 20766785
GGACUCCACAUUCUGCGCGGUGAAUCCCAAGUUCCUGGCCAUUAUCGUAGAGUCGGCGGGCGGCGGAGCCUUCAUCGUCCUGCCACACAACAAAGUGAGUG---CGCCA--------CCG
.(((((.((((..((.((.(.((((.....)))).).))))..)).)).)))))((((.(((((((..(.......)..))))).(((......))).)).---)))).--------... ( -37.00)
>DroVir_CAF1 7195 107 - 1
GGAUUCCACAUUCUGUGCGGUCAAUCCAAAGUUUCUGGCCAUCAUUGUGGAGUCGGCGGGCGGCGGCGCGUUCAUUGUAUUGCCACACAAUAAAGUGAGUA---CCG----------GCA
.(((((((((...((...(((((............)))))..)).)))))))))(.((((((((((..((.....))..))))).(((......))).)).---)))----------.). ( -36.60)
>DroGri_CAF1 4969 117 - 1
GGACUCCACAUUCUGUGCGGUCAAUCCAAAAUUCUUGGCCAUAAUUGUGGAGUCGGCGGGCGGCGGUGCAUUCAUUGUGUUGCCACACAAUAAAGUGAGUA---UUAUAAUUAUUAAUCA
.(((((((((.....((.((((((..........)))))).))..))))))))).....(((((((..((.....))..))))).(((......))).)).---................ ( -35.30)
>DroMoj_CAF1 6630 110 - 1
GGACUCCACAUUCUGUGCGGUAAAUCCAAAGUUUUUGGCCAUCAUUGUGGAGUCAGCAGGUGGCGGAGCCUUCAUCGUAUUGCCACACAAUAAAGUGAGUAUAUCUG----------AUA
.(((((((((...((.((.(.((((.....)))).).))))....)))))))))..((((((((...)))(((((..(((((.....)))))..)))))...)))))----------... ( -32.10)
>DroAna_CAF1 3820 109 - 1
GGACUCCACAUUCUGUGCCGUCAAUCCAAAGUUCCUGGCCAUCAUUGUGGAGUCGGCGGGCGGCGGUGCCUUCAUCGUCUUGCCCCACAACAAAGUAAGUG---CCCCA--------UUC
.(((((((((...((.((((..(((.....)))..))))))....)))))))))((((((((((((((....)))))))..)))).((......))....)---))...--------... ( -39.50)
>DroPer_CAF1 3874 111 - 1
GGACUCCACAUUCUGCGCCGUCAAUCCAAAGUUCCUGGCCAUCAUUGUGGAGUCGGCGGGCGGUGGUGCCUUUAUCGUCUUGCCACACAAUAAAGUGAGUAUG-CACAG--------CCA
.(((((((((...((.((((..(((.....)))..))))))....)))))))))((((((((((((.....)))))))))((((((........))).)))..-....)--------)). ( -39.00)
>consensus
GGACUCCACAUUCUGUGCGGUCAAUCCAAAGUUCCUGGCCAUCAUUGUGGAGUCGGCGGGCGGCGGUGCCUUCAUCGUCUUGCCACACAAUAAAGUGAGUA___CCC_A________CCA
.(((((((((...((.((.(..(((.....)))..).))))....)))))))))(((((((((.((.....)).)))).))))).(((......)))....................... (-23.97 = -23.58 +  -0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:31 2006