Locus 1462

Sequence ID 3L_DroMel_CAF1
Location 4,239,976 – 4,240,072
Length 96
Max. P 0.670929
window2275

overview

Window 5

Location 4,239,976 – 4,240,072
Length 96
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 78.08
Mean single sequence MFE -25.95
Consensus MFE -17.14
Energy contribution -17.67
Covariance contribution 0.53
Combinations/Pair 1.24
Mean z-score -1.34
Structure conservation index 0.66
SVM decision value 0.29
SVM RNA-class probability 0.670929
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4239976 96 + 23771897
GAUUUGGGCACUUGCCUGUGUGGCAGAUGGCUGUGCAGCGAUGUCCGCAAGGAUACUGAAA----AAAUAUAU--AUAUCACUGUAAGGCUU--GAUCGACAAU
((.(..(((.((((((((((..((.....))..)))))((.(((((....))))).))...----........--........)))))))).--.)))...... ( -30.10)
>DroGri_CAF1 1991 101 + 1
GAUUGGGACACAGGCCGGGAUGGCAGAUGGUCAGGCAGCGAUGGCCACAAGCAAACUGAAAUUAAAUAUGAAU---UCUAAUUUAAAGAAAUGCAGUCAGAAAU
(((((.(...((((((.....)))...((((((........))))))........)))..............(---(((.......)))).).)))))...... ( -20.00)
>DroSec_CAF1 1636 95 + 1
GAUUUGGGCACUUGCCUGUGUGGCAGAUGGCUGUGCAGCGAUGUCCGCAAGGAUACUGAAA----AAG-AAGU--AUAUCACUACAUGGCUU--GAUCGAAAGU
..((((..((.(((((.....)))))..(((((((.((.(((((((....)))((((....----...-.)))--))))).)).))))))))--)..))))... ( -28.70)
>DroSim_CAF1 1631 95 + 1
GAUUUGGGCACUUGCCUGUGUGGCAGAUGGCUGUGCAGCGAUGUCCGCAAGGAUACUGAAA----AAA-AAGU--AAAUCACUAUAUGGCUU--GAUCGAAAGU
..((((..((.(((((.....)))))..(((((((.((.(((.(((....)))((((....----...-.)))--).))).)).))))))))--)..))))... ( -26.30)
>DroEre_CAF1 1614 98 + 1
GAUUUGGGCACUUGCCUGUGUGGCAAAUGGCUGUGCAGCGAUGUCCGCAAGGAUACUGAAA----AGGUGUAUGAAUUUAAAGAUAUAGCUU--UAUCGAAAAU
((((((.((((((..(((((..((.....))..)))))((.(((((....))))).))...----)))))).))))))....((((......--))))...... ( -28.10)
>DroYak_CAF1 1615 98 + 1
GAUUUGGACACUUGCCUGUGUGGCAGAUGGCUGUGCAGCGAUGCCCGCAAGGAUACUGAAA----ACGUAUUUUAAUUUAAAGAUAUAGCUU--GAUCGAAAAU
((((....((.(((((.....))))).))(((((((.(((.....))).((((((((....----).)))))))........).))))))..--))))...... ( -22.50)
>consensus
GAUUUGGGCACUUGCCUGUGUGGCAGAUGGCUGUGCAGCGAUGUCCGCAAGGAUACUGAAA____AAAUAAAU__AUAUAACUAUAUGGCUU__GAUCGAAAAU
((((.((.((.(((((.....))))).)).))...(((...(((((....))))))))....................................))))...... (-17.14 = -17.67 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:17 2006