Locus 6199

Sequence ID 3L_DroMel_CAF1
Location 16,441,882 – 16,441,976
Length 94
Max. P 0.884293
window9952

overview

Window 2

Location 16,441,882 – 16,441,976
Length 94
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 77.62
Mean single sequence MFE -13.36
Consensus MFE -3.69
Energy contribution -3.70
Covariance contribution 0.01
Combinations/Pair 1.23
Mean z-score -2.14
Structure conservation index 0.28
SVM decision value 0.93
SVM RNA-class probability 0.884293
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16441882 94 + 23771897
GGAAAAAACAUUUUCAUUCAUAAAACAGUAGAAAUUCCAAAAGGAAGCG-GGCAAAAGCCA-ACAGACAACAGCAGAAAAAUUAUAAGAAUGUUAA-
......((((((((....................((((....))))(..-(((....))).-.)......................))))))))..- ( -13.20)
>DroPse_CAF1 64831 91 + 1
GAAAAAAACAUUUUCAUUCAUAAA-AAGCAGAAAUUCCAAAAGGAAGCAACGCAAAAGUCAAACAGACAGCAG-----AAUUUACAAGAAUGUUGAA
......((((((((.((((.....-..((.....((((....)))).....))....(((.....)))....)-----))).....))))))))... ( -14.00)
>DroSec_CAF1 54316 94 + 1
GGAUAAAACAUUUUCAUUCAUAAAACAGCAGAAAUUCCAAAAGGAAGCG-GGCAAAAGCCA-ACAGACAACAGCAGAAAAAUUAUAAGAAUGUUAA-
......((((((((.((..........((.....((((....))))(..-(((....))).-.)........)).........)).))))))))..- ( -14.31)
>DroWil_CAF1 59878 81 + 1
GGCAAAAA---UUUCAUUCAUAAAAGUGCAAAAAUGCUAAAAGGAAGCA--------GCCA-GCAG-CAGCAACAAAGAAGUUGAAUUAA-GUUA--
(((.....---(((((((......)))).)))..((((.......))))--------)))(-((..-...((((......))))......-))).-- ( -11.30)
>DroPer_CAF1 67409 92 + 1
GAAAAAAACAUUUUCAUUCAUAAAAAAGCAGAAAUUCCAAAAGGAAGCAACGCAAAAGUCAAACAGACAGCAG-----AAUUUACAAGAAUGUUGAA
......((((((((.((((........((.....((((....)))).....))....(((.....)))....)-----))).....))))))))... ( -14.00)
>consensus
GGAAAAAACAUUUUCAUUCAUAAAAAAGCAGAAAUUCCAAAAGGAAGCA_CGCAAAAGCCA_ACAGACAGCAGCA_A_AAAUUACAAGAAUGUUAA_
..........((..(((((...............((((....))))((.........))............................)))))..)). ( -3.69 =  -3.70 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:34 2006