Locus 1852

Sequence ID	2R_DroMel_CAF1
Location	6,968,895 – 6,968,998
Length	103
Max. P	0.999975

overview

Window 6

Location	6,968,895 – 6,968,998
Length	103
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	97.08
Mean single sequence MFE	-27.17
Consensus MFE	-25.12
Energy contribution	-25.72
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.72
Structure conservation index	0.92
SVM decision value	3.98
SVM RNA-class probability	0.999741
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6968895 103 + 20766785
UUGAUUGCGUUUUUUUUUCUCACUUAACAGAGUUCUGUACAAACAAAAUGUUAGCUAACAGGGCUCUGCAAAGUGAAAUAUCUCGCGGAAAAGGCAGUAUUAA
...(((((.((((((....((((((..(((((((((((.(.(((.....))).)...)))))))))))..))))))..........)))))).)))))..... ( -28.54)
>DroSec_CAF1 12976 103 + 1
UUGAUUGCGUUUUUUUUUCUCACUUAACAGAGUUCUGUACAAACAAAAUGUUAGCUAACAGGGCUCUGCACAGUGAAAUAUCUCGCGGAAAAGGCAGUAUUAA
...(((((.((((((............(((((((((((.(.(((.....))).)...)))))))))))....((((......)))))))))).)))))..... ( -27.50)
>DroSim_CAF1 20387 102 + 1
UUGAUUGCGUUUU-UUUUCUCACUUAACAGAGUUCUGUACAAACAAAAUGUUAGCUAACAGGGCUCUGCACAGUGAAAUAUCUCGCGGAAAAGGCAGUAUUAA
...(((((.((((-((...........(((((((((((.(.(((.....))).)...)))))))))))....((((......)))))))))).)))))..... ( -27.50)
>DroEre_CAF1 19826 102 + 1
UUGAUUGCGUUUU-UUUUCUCACUUAACAGAGUUCUGUACAAACAAAAUGUUAGCUAACAGCGCUCUGCAAAGUGAAAUAUCUCGCGGAAUAAGCAGUAUUAA
...(((((.....-.....((((((..((((((.((((.(.(((.....))).)...)))).))))))..))))))....((.....))....)))))..... ( -24.10)
>DroYak_CAF1 13137 101 + 1
UUGAUUGCGUUUU-UUUUCUCACUUAACAGAGUUCUGUACAAACAAAAUGUUAGCUAACAGGGCUCUGCAAAGUGAAAUAUCUCGCGGAAAAAGCAGUAUUA-
...(((((.((((-((..(((((((..(((((((((((.(.(((.....))).)...)))))))))))..))))))........)..)))))))))))....- ( -28.20)
>consensus
UUGAUUGCGUUUU_UUUUCUCACUUAACAGAGUUCUGUACAAACAAAAUGUUAGCUAACAGGGCUCUGCAAAGUGAAAUAUCUCGCGGAAAAGGCAGUAUUAA
...(((((...........((((((..(((((((((((.(.(((.....))).)...)))))))))))..))))))....((.....))....)))))..... (-25.12 = -25.72 +   0.60)

alignment

secondary structure

dotplot

Window 7

Location	6,968,895 – 6,968,998
Length	103
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	97.08
Mean single sequence MFE	-26.90
Consensus MFE	-26.60
Energy contribution	-27.00
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-3.07
Structure conservation index	0.99
SVM decision value	5.13
SVM RNA-class probability	0.999975
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6968895 103 - 20766785
UUAAUACUGCCUUUUCCGCGAGAUAUUUCACUUUGCAGAGCCCUGUUAGCUAACAUUUUGUUUGUACAGAACUCUGUUAAGUGAGAAAAAAAAACGCAAUCAA
.......(((.((((.(....)...((((((((.((((((..((((..((.(((.....))).))))))..)))))).))))))))....)))).)))..... ( -27.40)
>DroSec_CAF1 12976 103 - 1
UUAAUACUGCCUUUUCCGCGAGAUAUUUCACUGUGCAGAGCCCUGUUAGCUAACAUUUUGUUUGUACAGAACUCUGUUAAGUGAGAAAAAAAAACGCAAUCAA
.......(((.((((.(....)...(((((((..((((((..((((..((.(((.....))).))))))..))))))..)))))))....)))).)))..... ( -25.50)
>DroSim_CAF1 20387 102 - 1
UUAAUACUGCCUUUUCCGCGAGAUAUUUCACUGUGCAGAGCCCUGUUAGCUAACAUUUUGUUUGUACAGAACUCUGUUAAGUGAGAAAA-AAAACGCAAUCAA
.......(((.((((.(....)...(((((((..((((((..((((..((.(((.....))).))))))..))))))..)))))))...-)))).)))..... ( -25.50)
>DroEre_CAF1 19826 102 - 1
UUAAUACUGCUUAUUCCGCGAGAUAUUUCACUUUGCAGAGCGCUGUUAGCUAACAUUUUGUUUGUACAGAACUCUGUUAAGUGAGAAAA-AAAACGCAAUCAA
.......(((......(....)...((((((((.((((((..((((..((.(((.....))).))))))..)))))).))))))))...-.....)))..... ( -28.40)
>DroYak_CAF1 13137 101 - 1
-UAAUACUGCUUUUUCCGCGAGAUAUUUCACUUUGCAGAGCCCUGUUAGCUAACAUUUUGUUUGUACAGAACUCUGUUAAGUGAGAAAA-AAAACGCAAUCAA
-......((((((((.(....)...((((((((.((((((..((((..((.(((.....))).))))))..)))))).))))))))..)-)))).)))..... ( -27.70)
>consensus
UUAAUACUGCCUUUUCCGCGAGAUAUUUCACUUUGCAGAGCCCUGUUAGCUAACAUUUUGUUUGUACAGAACUCUGUUAAGUGAGAAAA_AAAACGCAAUCAA
.......(((......(....)...((((((((.((((((..((((..((.(((.....))).))))))..)))))).)))))))).........)))..... (-26.60 = -27.00 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:49 2006