Locus 3021

Sequence ID 3L_DroMel_CAF1
Location 8,685,807 – 8,685,916
Length 109
Max. P 0.500000
window4711

overview

Window 1

Location 8,685,807 – 8,685,916
Length 109
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 90.25
Mean single sequence MFE -27.57
Consensus MFE -22.13
Energy contribution -22.53
Covariance contribution 0.40
Combinations/Pair 1.08
Mean z-score -1.34
Structure conservation index 0.80
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8685807 109 + 23771897
CGAAAACAA----------AAAUGCGUUCGCCAAGUCGGCAAACUUGCAAAAGCAUCCCGGCGAUGCGAAACAAACAAAUCACGCGCAUGCCACUCUGAUUUUCGUAUUCUUCGGGGUU
.........----------..((((((((((...(((((......(((....)))..)))))...))))..............))))))...(((((((............))))))). ( -25.83)
>DroSec_CAF1 73574 109 + 1
CGAAAACAA----------AAAUGCAUUCGCCGAGUCGGCAAACUUGCAAAAGCAUCCCGGCGAUGCGAAACAAACAAAUCACGCGCAUGCCACUCGAAUUUUCGUAUUCUUCGGCGUU
.........----------.........((((((((.((((....(((....(((((.....)))))((..........))....)))))))))))((((......))))...)))).. ( -27.00)
>DroSim_CAF1 74030 109 + 1
CGAAAACAA----------AAAUGCAUUCGCCGAGUCGGCAAACUUGCAAAAGCAUCCCGGCGAUGCGAAACAAACAAAUCACGCGCAUGCCACUCGAAUUUUCGUAUUCUUCGGAGUU
((((((...----------....((....))(((((.((((....(((....(((((.....)))))((..........))....))))))))))))..)))))).((((....)))). ( -27.60)
>DroEre_CAF1 77930 117 + 1
CGAAAAUAAAAAACAAAAAGAACGCAUUCGCCGAGUCGGCAAACUUGCAAAAGCAUCCCGGCGAUGCGAAACAAACAAAUCACGCGCAUGCCACUCGGAU-U-UGUAUUCUUCGGGGUU
...........(((...(((((..((....((((((.((((....(((....(((((.....)))))((..........))....)))))))))))))..-.-))..)))))....))) ( -30.90)
>DroYak_CAF1 76192 110 + 1
CGAAAAAA--------GAAAUAUGCAUUCGCCGAGUCGGCAAACUUGCAAAAGCAUCCCGGCGAUGCGAAACAAACAAAUCACGCGCAUGCCACUCGAAUUU-UGUAUUCUUCGGGGUU
........--------(((..(((((.....(((((.((((....(((....(((((.....)))))((..........))....)))))))))))).....-)))))..)))...... ( -26.50)
>consensus
CGAAAACAA__________AAAUGCAUUCGCCGAGUCGGCAAACUUGCAAAAGCAUCCCGGCGAUGCGAAACAAACAAAUCACGCGCAUGCCACUCGAAUUUUCGUAUUCUUCGGGGUU
......................((((...(((.....))).....)))).....((((((((.(((((................))))))))....((((......))))...))))). (-22.13 = -22.53 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:33 2006