Locus 2432

Sequence ID	3R_DroMel_CAF1
Location	6,769,769 – 6,769,953
Length	184
Max. P	0.962532

overview

Window 6

Location	6,769,769 – 6,769,873
Length	104
Sequences	3
Columns	104
Reading direction	forward
Mean pairwise identity	100.00
Mean single sequence MFE	-38.70
Consensus MFE	-38.70
Energy contribution	-38.70
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.81
Structure conservation index	1.00
SVM decision value	0.76
SVM RNA-class probability	0.842254
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6769769 104 + 27905053
UGAGUGCCACUGGACUGGUGUGCGUGCGAGUGUGCAUGUGUGUUUGUGCAGCAGGCCGUGCGUUGAUUGAUGAUAAAUACUCCAGUCGGCGGACGGAAGGAUCG
.((...((.(((.((..(..((((((((....))))))))..)..)).)))....((((.(((((((((..(.......)..))))))))).))))..)).)). ( -38.70)
>DroSec_CAF1 34056 104 + 1
UGAGUGCCACUGGACUGGUGUGCGUGCGAGUGUGCAUGUGUGUUUGUGCAGCAGGCCGUGCGUUGAUUGAUGAUAAAUACUCCAGUCGGCGGACGGAAGGAUCG
.((...((.(((.((..(..((((((((....))))))))..)..)).)))....((((.(((((((((..(.......)..))))))))).))))..)).)). ( -38.70)
>DroSim_CAF1 38562 104 + 1
UGAGUGCCACUGGACUGGUGUGCGUGCGAGUGUGCAUGUGUGUUUGUGCAGCAGGCCGUGCGUUGAUUGAUGAUAAAUACUCCAGUCGGCGGACGGAAGGAUCG
.((...((.(((.((..(..((((((((....))))))))..)..)).)))....((((.(((((((((..(.......)..))))))))).))))..)).)). ( -38.70)
>consensus
UGAGUGCCACUGGACUGGUGUGCGUGCGAGUGUGCAUGUGUGUUUGUGCAGCAGGCCGUGCGUUGAUUGAUGAUAAAUACUCCAGUCGGCGGACGGAAGGAUCG
.((...((.(((.((..(..((((((((....))))))))..)..)).)))....((((.(((((((((..(.......)..))))))))).))))..)).)). (-38.70 = -38.70 +  -0.00)

alignment

secondary structure

dotplot

Window 7

Location	6,769,795 – 6,769,913
Length	118
Sequences	3
Columns	118
Reading direction	forward
Mean pairwise identity	100.00
Mean single sequence MFE	-42.90
Consensus MFE	-42.90
Energy contribution	-42.90
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.33
Structure conservation index	1.00
SVM decision value	0.01
SVM RNA-class probability	0.537635
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6769795 118 + 27905053
CGAGUGUGCAUGUGUGUUUGUGCAGCAGGCCGUGCGUUGAUUGAUGAUAAAUACUCCAGUCGGCGGACGGAAGGAUCGCACUGGCCCGCUUGAGAUAAAGCGUUCAAAUGCGCCGCAU
.....((((..(((((((((.((....((((((((((((((((..(.......)..))))))))...(....)....)))).)))).((((......)))))).))))))))).)))) ( -42.90)
>DroSec_CAF1 34082 118 + 1
CGAGUGUGCAUGUGUGUUUGUGCAGCAGGCCGUGCGUUGAUUGAUGAUAAAUACUCCAGUCGGCGGACGGAAGGAUCGCACUGGCCCGCUUGAGAUAAAGCGUUCAAAUGCGCCGCAU
.....((((..(((((((((.((....((((((((((((((((..(.......)..))))))))...(....)....)))).)))).((((......)))))).))))))))).)))) ( -42.90)
>DroSim_CAF1 38588 118 + 1
CGAGUGUGCAUGUGUGUUUGUGCAGCAGGCCGUGCGUUGAUUGAUGAUAAAUACUCCAGUCGGCGGACGGAAGGAUCGCACUGGCCCGCUUGAGAUAAAGCGUUCAAAUGCGCCGCAU
.....((((..(((((((((.((....((((((((((((((((..(.......)..))))))))...(....)....)))).)))).((((......)))))).))))))))).)))) ( -42.90)
>consensus
CGAGUGUGCAUGUGUGUUUGUGCAGCAGGCCGUGCGUUGAUUGAUGAUAAAUACUCCAGUCGGCGGACGGAAGGAUCGCACUGGCCCGCUUGAGAUAAAGCGUUCAAAUGCGCCGCAU
.....((((..(((((((((.((....((((((((((((((((..(.......)..))))))))...(....)....)))).)))).((((......)))))).))))))))).)))) (-42.90 = -42.90 +  -0.00)

alignment

secondary structure

dotplot

Window 8

Location	6,769,833 – 6,769,953
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	99.33
Mean single sequence MFE	-29.02
Consensus MFE	-28.36
Energy contribution	-28.36
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.69
Structure conservation index	0.98
SVM decision value	1.54
SVM RNA-class probability	0.962532
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6769833 120 - 27905053
CCAGAAUUUCCCUUUCACUUUUCAUGUUGCAUCAUUUAAUAUGCGGCGCAUUUGAACGCUUUAUCUCAAGCGGGCCAGUGCGAUCCUUCCGUCCGCCGACUGGAGUAUUUAUCAUCAAUC
((((..................(((((((.......)))))))(((((((((.(..(((((......)))))..).)))))(((......))).)))).))))................. ( -29.10)
>DroSec_CAF1 34120 120 - 1
CCAGAAUUUCCCUUUCACUUUUCAUGUUGCAUCAUUUAAUAUGCGGCGCAUUUGAACGCUUUAUCUCAAGCGGGCCAGUGCGAUCCUUCCGUCCGCCGACUGGAGUAUUUAUCAUCAAUC
((((..................(((((((.......)))))))(((((((((.(..(((((......)))))..).)))))(((......))).)))).))))................. ( -29.10)
>DroSim_CAF1 38626 120 - 1
CCAGAAUUUCCCUUUCACUUUUCAUGUUGCAUCAUUUAAUAUGCGGCGCAUUUGAACGCUUUAUCUCAAGCGGGCCAGUGCGAUCCUUCCGUCCGCCGACUGGAGUAUUUAUCAUCAAUC
((((..................(((((((.......)))))))(((((((((.(..(((((......)))))..).)))))(((......))).)))).))))................. ( -29.10)
>DroEre_CAF1 19011 120 - 1
CCAGAAUUUCCCUUUCACUUUUCAUGUUGCAUCAUUUAAUAUGCGGCGCAUUUGAACGCUUUAUCUCAAGCGGGCCAGUGCGAUCCUUCCGUCCGCCGACUGGAGUAUUUAUCAUCAAUC
((((..................(((((((.......)))))))(((((((((.(..(((((......)))))..).)))))(((......))).)))).))))................. ( -29.10)
>DroYak_CAF1 31093 120 - 1
CCAGAAUUUCCCUUUCACUUUCCAUGUUGCAUCAUUUAAUAUGCGGCGCAUUUGAACGCUUUAUCUCAAGCGGUCCAGUGCGAUCCUUCCGUCCGCCGACUGGAGUAUUUAUCAUCAAUC
((((..................(((((((.......)))))))(((((((((.((.(((((......))))).)).)))))(((......))).)))).))))................. ( -28.70)
>consensus
CCAGAAUUUCCCUUUCACUUUUCAUGUUGCAUCAUUUAAUAUGCGGCGCAUUUGAACGCUUUAUCUCAAGCGGGCCAGUGCGAUCCUUCCGUCCGCCGACUGGAGUAUUUAUCAUCAAUC
((((..................(((((((.......)))))))(((((((((.(..(((((......)))))..).)))))(((......))).)))).))))................. (-28.36 = -28.36 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:54 2006