Locus 5684

Sequence ID	2R_DroMel_CAF1
Location	18,022,990 – 18,023,085
Length	95
Max. P	0.992283

overview

Window 2

Location	18,022,990 – 18,023,085
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	92.84
Mean single sequence MFE	-26.66
Consensus MFE	-25.04
Energy contribution	-24.96
Covariance contribution	-0.08
Combinations/Pair	1.12
Mean z-score	-1.70
Structure conservation index	0.94
SVM decision value	2.32
SVM RNA-class probability	0.992283
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18022990 95 + 20766785
UUAACCACGAACAUGUAUAUGCCAUGCUCAAUUAGGCGAUCCUUUUCAAAACGCCGUGUCUGAAGAUCGUUUUGAGCGGGUUGCCAACCCGUAAU
......((((.((((.......)))).)).....((((((((..(((((((((....(((....)))))))))))).)))))))).....))... ( -26.50)
>DroSec_CAF1 36976 95 + 1
UCAACCGUGAACAUGUAUAUGUCAUGCUCAAUUAGGCGAUCCCUAUCAAAACGCCGGGUCUGAAGAUCGUUUUGAGCGGGUUGCCAAUCAGUAAU
.......(((.((((.......)))).)))....((((((((...((((((((....(((....)))))))))))..)))))))).......... ( -28.00)
>DroSim_CAF1 36003 95 + 1
UCAACCAUGAACAUGUAUAUGUCAUGCUCAAUUAGGCGAUCCUUUUCAGAACGCCGGGUCUGAAGAUCGUUUUGAGCGGGUUGCCAACCAGUAAU
.(((((((((.(((....)))))))((((((...(((((((...((((((.(....).))))))))))))))))))).)))))............ ( -29.20)
>DroEre_CAF1 38521 95 + 1
UUAACCAUAAACAUGUAUAUGUCAUGCUCAAUUAGGCGAUCCUUUUCAAAACGCCGGGUCUGAAGAUCGUUUUGAGCGGGUUGCCACCCCGAAAU
...........((((.......))))........((((((((..(((((((((....(((....)))))))))))).)))))))).......... ( -24.50)
>DroYak_CAF1 36404 95 + 1
UUAACCAUGAACAUGUAUAUGUCAUGCUCAAUUAGGCGAUCCUUUUUGAAACGCCGGGUCUGAAGAUCGUUUUGAGCGGGUUGCCACCCCGAAAU
.......(((.((((.......)))).)))....((((((((..((..(((((....(((....))))))))..)).)))))))).......... ( -25.10)
>consensus
UUAACCAUGAACAUGUAUAUGUCAUGCUCAAUUAGGCGAUCCUUUUCAAAACGCCGGGUCUGAAGAUCGUUUUGAGCGGGUUGCCAACCCGUAAU
.......(((.((((.......)))).)))....((((((((...((((((((....(((....)))))))))))..)))))))).......... (-25.04 = -24.96 +  -0.08)

alignment

secondary structure

dotplot

Window 3

Location	18,022,990 – 18,023,085
Length	95
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	92.84
Mean single sequence MFE	-27.50
Consensus MFE	-20.98
Energy contribution	-21.38
Covariance contribution	0.40
Combinations/Pair	1.17
Mean z-score	-1.94
Structure conservation index	0.76
SVM decision value	0.51
SVM RNA-class probability	0.762702
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18022990 95 - 20766785
AUUACGGGUUGGCAACCCGCUCAAAACGAUCUUCAGACACGGCGUUUUGAAAAGGAUCGCCUAAUUGAGCAUGGCAUAUACAUGUUCGUGGUUAA
....((..(((((.....)).)))..)).........(((((((((((....)))).)))).....(((((((.......))))))))))..... ( -28.10)
>DroSec_CAF1 36976 95 - 1
AUUACUGAUUGGCAACCCGCUCAAAACGAUCUUCAGACCCGGCGUUUUGAUAGGGAUCGCCUAAUUGAGCAUGACAUAUACAUGUUCACGGUUGA
...((((...(((..(((..((((((((.((.........))))))))))..)))...)))....((((((((.......))))))))))))... ( -28.30)
>DroSim_CAF1 36003 95 - 1
AUUACUGGUUGGCAACCCGCUCAAAACGAUCUUCAGACCCGGCGUUCUGAAAAGGAUCGCCUAAUUGAGCAUGACAUAUACAUGUUCAUGGUUGA
............(((((.((((((.....((....))...((((((((....)))).))))...))))))(((((((....))).))))))))). ( -27.30)
>DroEre_CAF1 38521 95 - 1
AUUUCGGGGUGGCAACCCGCUCAAAACGAUCUUCAGACCCGGCGUUUUGAAAAGGAUCGCCUAAUUGAGCAUGACAUAUACAUGUUUAUGGUUAA
......((((((....)))))).............((((.((((((((....)))).))))....((((((((.......)))))))).)))).. ( -26.00)
>DroYak_CAF1 36404 95 - 1
AUUUCGGGGUGGCAACCCGCUCAAAACGAUCUUCAGACCCGGCGUUUCAAAAAGGAUCGCCUAAUUGAGCAUGACAUAUACAUGUUCAUGGUUAA
......((((((....)))))).............((((.((((.(((.....))).))))....((((((((.......)))))))).)))).. ( -27.80)
>consensus
AUUACGGGUUGGCAACCCGCUCAAAACGAUCUUCAGACCCGGCGUUUUGAAAAGGAUCGCCUAAUUGAGCAUGACAUAUACAUGUUCAUGGUUAA
....((((.......))))................((((.((((((((....)))).))))....((((((((.......)))))))).)))).. (-20.98 = -21.38 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:45 2006