Locus 4465

Sequence ID	X_DroMel_CAF1
Location	11,813,824 – 11,814,024
Length	200
Max. P	0.744177

overview

Window 7

Location	11,813,824 – 11,813,944
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	95.28
Mean single sequence MFE	-29.88
Consensus MFE	-26.98
Energy contribution	-27.20
Covariance contribution	0.22
Combinations/Pair	1.06
Mean z-score	-1.19
Structure conservation index	0.90
SVM decision value	0.32
SVM RNA-class probability	0.689059
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11813824 120 + 22224390
AGUGCCAACACAACACAGUUGGCUAUGAUUGUCAAUAACACAGCGUAUUCAAAGGGCGGCCAUUCUAUGAUGAAUCGUGUGUACUUUCUAAUUGGGUUAUCCUCGGUUAGAAUAAACAAU
...((((((........))))))....(((((.....(((((.((.(((((.((((......))))....))))))))))))...(((((((((((.....)))))))))))...))))) ( -29.80)
>DroGri_CAF1 22142 120 + 1
AGUGCCAACACAACACAGUUGGCUAUGAUUGUCAAUAACACAGCGUACUCAAAGGGCGGCCAUUCAAUUAUGAAUCGUGUGUACUUUCUAAUUGGGUUAUCCUCGGUGAGGAUAAACAAC
...((((((........))))))..((.(((((....((.....)).((((.((((..(((...((((((.(((...........))))))))))))..))))...))))))))).)).. ( -29.60)
>DroWil_CAF1 21346 120 + 1
AAUGCCAACACAACACAGUUGGCAAUGAUUGUCAAUAACACAGCAUAUUCAAAGGGCGGCCAUUCUAUGAUGAAUCGUGUGUACUUUCUAAUUGGGUUAUCCUCGGUUAGGAUAAACAAU
..(((((((........))))))).((.(((((....((((.((...........)).((.((((......)))).)))))).....(((((((((.....)))))))))))))).)).. ( -30.10)
>DroMoj_CAF1 23514 120 + 1
AAUGCCAACACAACACAGUUGGCUAUGAUUGUCAAUAACACAGCGUACUCAAAGGGCGGCCAUUCAAUGAUGAAUCGUGUGUACUUUCUAAUUGGGUUAUCCUCGGUUAGGAUAAACAAU
...((((((........))))))..((.(((((....((((..((..(.....)..))((.(((((....))))).)))))).....(((((((((.....)))))))))))))).)).. ( -30.60)
>DroAna_CAF1 17067 120 + 1
AGCGCCAACACAACACAGUUGGCUAUGAUUGUCAAUAACACAGCGUAUUCAAAGGGCGGCCAUUCUAUGAUGAAUCGUGUGUACUUCCUAAUUGGGUUAUCCUCGGUAAGGAUGAAUAAC
.((((((((........))))))..((.....))........)).((((((.((..((((.((((......)))).)).))..))((((.((((((.....)))))).)))))))))).. ( -28.50)
>DroPer_CAF1 16743 120 + 1
AGCGCCAACACAACACAGUUGGCUAUGAUUGUCAAUAACACAGCGUAUUCAAAGGGCGGCCAUUCAAUGAUGAAUCGUGUGUACUUUCUAAUUGGGUUAUCCUCGGUUAGGAUAAACAAU
...((((((........))))))..((.(((((....(((((.((.(((((..((....))..((...)))))))))))))).....(((((((((.....)))))))))))))).)).. ( -30.70)
>consensus
AGUGCCAACACAACACAGUUGGCUAUGAUUGUCAAUAACACAGCGUAUUCAAAGGGCGGCCAUUCAAUGAUGAAUCGUGUGUACUUUCUAAUUGGGUUAUCCUCGGUUAGGAUAAACAAU
...((((((........))))))..((.(((((....((((.((.(.......).)).((.((((......)))).)))))).....(((((((((.....)))))))))))))).)).. (-26.98 = -27.20 +   0.22)

alignment

secondary structure

dotplot

Window 8

Location	11,813,904 – 11,814,024
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	96.22
Mean single sequence MFE	-32.85
Consensus MFE	-31.82
Energy contribution	-31.27
Covariance contribution	-0.55
Combinations/Pair	1.14
Mean z-score	-0.85
Structure conservation index	0.97
SVM decision value	0.46
SVM RNA-class probability	0.744177
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11813904 120 + 22224390
GUACUUUCUAAUUGGGUUAUCCUCGGUUAGAAUAAACAAUGACGUCGGACCACCACCUGGUGGGUUUUCCUCUUUUUUCGGGCCACCCAUUCUAUCAGCUAAGCGAUGGGCUCCCUUUCG
((...(((((((((((.....)))))))))))...)).........((((((((....)))))....))).........(((...((((((((........)).))))))..)))..... ( -32.90)
>DroGri_CAF1 22222 120 + 1
GUACUUUCUAAUUGGGUUAUCCUCGGUGAGGAUAAACAACGAAGUCGGACCACCACCUGGUGGGUUUUCUUCUUUUUUCGGGCCACCCAUUCUAUCAGCUAAGCGAUGGGCUCCCUUUCG
...........(((..((((((((...)))))))).))).((((.....(((((....))))).....)))).......(((...((((((((........)).))))))..)))..... ( -34.80)
>DroEre_CAF1 17461 120 + 1
GUACUUUCUAAUUGGGUUAUCCUCGGUUAGAAUAAACAAUGACGUCGGACCACCACCUGGUGGGUUUUCCUCUUUUUUCGGGCCACCCAUUCUAUCAGCUAAGCGAUGGGCUCCCUUUCG
((...(((((((((((.....)))))))))))...)).........((((((((....)))))....))).........(((...((((((((........)).))))))..)))..... ( -32.90)
>DroWil_CAF1 21426 120 + 1
GUACUUUCUAAUUGGGUUAUCCUCGGUUAGGAUAAACAAUGACGUCGGACCACCACCUGGUGGGUUAUCCUCUUUUUUUGGGCCACCCAUUCUAUCAGCUAAGCGAUGGGCUCCCUUUCG
((...(((((((((((.....)))))))))))...)).........((((((((....)))))....))).........(((...((((((((........)).))))))..)))..... ( -32.10)
>DroYak_CAF1 14710 120 + 1
GUACUUUCUAAUUGGGUUAUCCUCGGUUAGAAUAAACAAUGACGUCGGACCACCACCUGGUGGGUUUUCCUCUUUUUUCGGGCCACCCAUUCUAUCAGCUAAGCGAUGGGCUCCCUUUCG
((...(((((((((((.....)))))))))))...)).........((((((((....)))))....))).........(((...((((((((........)).))))))..)))..... ( -32.90)
>DroAna_CAF1 17147 120 + 1
GUACUUCCUAAUUGGGUUAUCCUCGGUAAGGAUGAAUAACGACGUCGGACCACCACCUGGUGGGUUCUCCUCUUUUUUUGGGCCACCCAUUCUAUCAGCUAAGCGAUGGGCUCCCUUUCG
.....((((.((((((.....)))))).)))).((((..((....))..(((((....)))))))))............(((...((((((((........)).))))))..)))..... ( -31.50)
>consensus
GUACUUUCUAAUUGGGUUAUCCUCGGUUAGAAUAAACAAUGACGUCGGACCACCACCUGGUGGGUUUUCCUCUUUUUUCGGGCCACCCAUUCUAUCAGCUAAGCGAUGGGCUCCCUUUCG
((...(((((((((((.....)))))))))))...))..(((....((((((((....)))))....))).........(((...((((((((........)).))))))..)))..))) (-31.82 = -31.27 +  -0.55)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:45 2006