Locus 770

Sequence ID 3R_DroMel_CAF1
Location 2,675,872 – 2,675,973
Length 101
Max. P 0.519998
window1226

overview

Window 6

Location 2,675,872 – 2,675,973
Length 101
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 83.60
Mean single sequence MFE -38.18
Consensus MFE -24.28
Energy contribution -25.17
Covariance contribution 0.89
Combinations/Pair 1.12
Mean z-score -2.20
Structure conservation index 0.64
SVM decision value -0.03
SVM RNA-class probability 0.519998
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2675872 101 + 27905053
UAUGCGACGAGGGUGCCACGGCAACCGGCCUAUGGCGCUCCAGCUUUUCCCUCGA-------UUUGGGGAAAAGCGCGCUCUCGAGAAAAGCGAGAAAUACGAGAAAA
...(((.((.((((((((.(((.....)))..))))))))).((((((((((...-------...))))))))))))))(((((.......)))))............ ( -41.90)
>DroSec_CAF1 35313 101 + 1
UAUGCGCCGAGGGUGCCACGGCAACCGGCCUAUGGCGCUCCAGCUUUUCCCUCGC-------UUUGGGGAAAAGCGCGCUCCCGUGAAAAGCGAGAAAUACGAGAAAA
...((((.(.((((((((.(((.....)))..))))))))).((((((((((...-------...))))))))))))))((.(((.....))).))............ ( -42.30)
>DroSim_CAF1 28505 101 + 1
UAUGCGACGAGGGUGCCACGGCAACCGGCCUAUGGCGCUCCAGCUUUUCCCUCGA-------UUUGGGGAAAAGCGCGCUCCCGUGAAAAGCGAGAAAUACGAGAAAA
...(((.((.((((((((.(((.....)))..))))))))).((((((((((...-------...))))))))))))))((.(((.....))).))............ ( -39.40)
>DroEre_CAF1 28615 100 + 1
UAUGCGACGAGGGUGCCACGGCAACCGGCCUAUGGCGCUCCAGCUUUUCCCUCGG-------UUUGGGGAAAA-UGCGCUCCCGGGAAAAGUGAGAAAUUCGAGAAAA
.......(((((((((((.(((.....)))..)))))).)).(((((((((.(..-------...)((((...-.....))))))))))))).......)))...... ( -35.10)
>DroYak_CAF1 35751 100 + 1
UAUGCGACGAGGGUGCCACGGCAACCGGCCUAUGGCGCUCCAGCUUUUUCCUCGA-------UUUGGGGAAAA-CGCGCUCCCGGGAAAAGCGAGAAAUUGGAGAAAA
....(..(((((((((((.(((.....)))..)))))).)).(((((((((.(..-------...)((((...-.....)))))))))))))......)))..).... ( -33.90)
>DroAna_CAF1 23396 94 + 1
UAUGCGUCGAGGGUGCCACGGCAACCGGCCUAUGGCGCUCGAGCUCCACGCUCAGCCGGAAAAUCGGGGAAAACCCCACC--------------GCAGCUGGAAAAAA
..(((((((.((((((((.(((.....)))..))))))))((((.....))))...)))......((((....))))..)--------------)))........... ( -36.50)
>consensus
UAUGCGACGAGGGUGCCACGGCAACCGGCCUAUGGCGCUCCAGCUUUUCCCUCGA_______UUUGGGGAAAAGCGCGCUCCCGGGAAAAGCGAGAAAUACGAGAAAA
...(((.((.((((((((.(((.....)))..))))))))....(((((((.(((........)))))))))).)))))............................. (-24.28 = -25.17 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:39 2006