Locus 4916

Sequence ID	3L_DroMel_CAF1
Location	13,669,080 – 13,669,191
Length	111
Max. P	0.995179

overview

Window 0

Location	13,669,080 – 13,669,191
Length	111
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	92.64
Mean single sequence MFE	-40.70
Consensus MFE	-39.34
Energy contribution	-40.15
Covariance contribution	0.81
Combinations/Pair	1.03
Mean z-score	-2.54
Structure conservation index	0.97
SVM decision value	2.55
SVM RNA-class probability	0.995179
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13669080 111 + 23771897
GACAAAACUAGCGCGCCAACUAGGCAAACACUUCCGCUGGCCGGAAGCAUGAAACAACUCGACAGCGGAAGUUGGCAAAGGCUAUGCUUUUCCCGCCUUCUGGCCUCAUCC---------
..........(.(.((((...((((....(((((((((((.(....)).(((......))).)))))))))).((.((((((...)))))).))))))..))))).)....--------- ( -37.90)
>DroSec_CAF1 76473 111 + 1
GACAAAACUAGCGCGCCAACUAGGCAAACACUUCCGCUGGCCGGAAGCAUGAAACAACUCGACAGCGGAAGUUGGCAAAGGCUAUGCUUUUCCCGCCCUCUGGCCCCGUCC---------
..........(((.((((....(((....(((((((((((.(....)).(((......))).)))))))))).((.((((((...)))))).)))))...))))..)))..--------- ( -36.30)
>DroEre_CAF1 81663 111 + 1
GACAAAACUAGCGCGCCAACUAGGCAAACACUUCCGCUGGCCGGAAGCAUGAAACAACUCGACGGCGGAAGUUGGCAAAGGCUAUGCUUUUGCCGCCCUCUGGCUUCGUCC---------
..........(((.((((....(((....(((((((((((.(....)).(((......))).)))))))))).(((((((((...))))))))))))...))))..)))..--------- ( -42.50)
>DroYak_CAF1 84919 120 + 1
GACAAAACUAGCGCGCCAACUAGGCAAACACUUCCGCUGGCCGGAAGCAUGAAACAACUCGACAGCGGAAGUUGGCAAAGGCUAUGCUUUUGCCGCCUCCUGGCUUCGUCCUCCGUCCUC
(((.......(((.((((...((((....(((((((((((.(....)).(((......))).)))))))))).(((((((((...)))))))))))))..))))..))).....)))... ( -46.10)
>consensus
GACAAAACUAGCGCGCCAACUAGGCAAACACUUCCGCUGGCCGGAAGCAUGAAACAACUCGACAGCGGAAGUUGGCAAAGGCUAUGCUUUUCCCGCCCUCUGGCCUCGUCC_________
..............((((...((((....(((((((((((.(....)).(((......))).)))))))))).(((((((((...)))))))))))))..))))................ (-39.34 = -40.15 +   0.81)

alignment

secondary structure

dotplot

Window 1

Location	13,669,080 – 13,669,191
Length	111
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	92.64
Mean single sequence MFE	-43.90
Consensus MFE	-42.42
Energy contribution	-42.30
Covariance contribution	-0.12
Combinations/Pair	1.10
Mean z-score	-1.37
Structure conservation index	0.97
SVM decision value	0.32
SVM RNA-class probability	0.688964
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13669080 111 - 23771897
---------GGAUGAGGCCAGAAGGCGGGAAAAGCAUAGCCUUUGCCAACUUCCGCUGUCGAGUUGUUUCAUGCUUCCGGCCAGCGGAAGUGUUUGCCUAGUUGGCGCGCUAGUUUUGUC
---------.((..(((((((.((((((.(((.((...)).))).)).(((((((((((((.(..((.....))..)))).))))))))))....))))..)))))((....))))..)) ( -39.60)
>DroSec_CAF1 76473 111 - 1
---------GGACGGGGCCAGAGGGCGGGAAAAGCAUAGCCUUUGCCAACUUCCGCUGUCGAGUUGUUUCAUGCUUCCGGCCAGCGGAAGUGUUUGCCUAGUUGGCGCGCUAGUUUUGUC
---------.((((((((...((.((((.(((.((...)).))).)).(((((((((((((.(..((.....))..)))).))))))))))....(((.....))))).)).)))))))) ( -42.00)
>DroEre_CAF1 81663 111 - 1
---------GGACGAAGCCAGAGGGCGGCAAAAGCAUAGCCUUUGCCAACUUCCGCCGUCGAGUUGUUUCAUGCUUCCGGCCAGCGGAAGUGUUUGCCUAGUUGGCGCGCUAGUUUUGUC
---------.((((((((...((.((((((((.((...)).)))))).((((((((.((((.(..((.....))..)))))..))))))))....(((.....))))).)).)))))))) ( -45.20)
>DroYak_CAF1 84919 120 - 1
GAGGACGGAGGACGAAGCCAGGAGGCGGCAAAAGCAUAGCCUUUGCCAACUUCCGCUGUCGAGUUGUUUCAUGCUUCCGGCCAGCGGAAGUGUUUGCCUAGUUGGCGCGCUAGUUUUGUC
...((((((((.((..(((((.((((((((((.((...)).)))))).(((((((((((((.(..((.....))..)))).))))))))))....))))..))))).))))...)))))) ( -48.80)
>consensus
_________GGACGAAGCCAGAAGGCGGCAAAAGCAUAGCCUUUGCCAACUUCCGCUGUCGAGUUGUUUCAUGCUUCCGGCCAGCGGAAGUGUUUGCCUAGUUGGCGCGCUAGUUUUGUC
..........(((((((((((.((((((((((.((...)).)))))).(((((((((((((.(..((.....))..)))).))))))))))....))))..)))))((....)))))))) (-42.42 = -42.30 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:54 2006