Locus 6428

Sequence ID	2L_DroMel_CAF1
Location	18,075,194 – 18,075,314
Length	120
Max. P	0.809692

overview

Window 5

Location	18,075,194 – 18,075,314
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	87.33
Mean single sequence MFE	-47.63
Consensus MFE	-38.03
Energy contribution	-37.95
Covariance contribution	-0.08
Combinations/Pair	1.20
Mean z-score	-2.63
Structure conservation index	0.80
SVM decision value	0.64
SVM RNA-class probability	0.809692
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18075194 120 + 22407834
UGCGAUCGAUCGCAUCGCAGGAGCACCAUUAACCUGGGCAUCCGCAAGGUGCAGUACGCACCGACCAAGCAGGGCAUCCAGCCCUGCACCGUCGUUCGCAAGGACUUCCUUCUGUCGCCC
(((((((....).))))))(((((.(((......))))).)))((..(((((.....)))))(((...(((((((.....)))))))......((((....))))........))))).. ( -50.80)
>DroVir_CAF1 362054 120 + 1
UGCGAUCGUUCGCAUAGACGCAGCACUAUUAACCUGGGCAUACGCAAGGUGCAGUAUGCACCCACCAAACAGGGCAUGCAGCCCUGCACGGUGGUGCGCAAGGACUUUCUGUUGUCGCCC
(((((....)))))..(((((.((((.........((((((((((.....)).)))))).))((((...((((((.....))))))...))))))))))...(((.....)))))).... ( -47.50)
>DroGri_CAF1 375270 120 + 1
UGCGAUCGCUCGCAUCGUCGCAGCACCAUCAAUCUGGGCAUACGCAAGGUGCAAUAUGCACCCACCAAGGAUGGUAUGCAACCAUGCACGGUGGUGCGCAAGGACUUCCUUUUGUCGCCC
.(((((.....((((.((.(((..((((((....(((((....))..(((((.....)))))..)))..)))))).))).)).))))..((.(((.(....).))).))....))))).. ( -46.50)
>DroWil_CAF1 362641 120 + 1
UGCGAUCGUUCGCAUCGUCGCAGCACCAUCAAUUUGGGCAUCCGCAAGGUGCAGUACGCACCAACCAAACAGGGCAUUCAGCCCUGCACAGUGGUACGUAAGGAUUUCCUUUUGUCGCCC
(((((.((.......))))))).............((((..((((..(((((.....))))).......((((((.....))))))....)))).(((.((((....)))).))).)))) ( -43.90)
>DroMoj_CAF1 426678 120 + 1
UGCGAUCGCUCGCAUCGUCGCAGCACCAUCAAUCUGGGCAUACGCAAGGUGCAGUAUGCACCCACCAAGCAGGGCUUGCAGCCGUGCACAGUGGUGCGCAAGGACUUCCUGCUGUCGCCC
.(((((.((..........((.(((((((.....(((((....))..(((((.....)))))..))).(((.(((.....))).)))...))))))))).(((....))))).))))).. ( -48.90)
>DroAna_CAF1 266161 120 + 1
UGCGACCGGUCGCAUCGCCGCAGCACCAUCAACCUGGGCAUCCGCAAGGUGCAGUACGCGCCCACCAAACAGGGCAUCCAGCCCUGCACCGUCGUCCGCAAGGACUUCCUCUUGUCGCCC
.(((((((((.(((..((.((....(((......)))(((.((....))))).....))((((........)))).....))..)))))))..((((....))))........))))).. ( -48.20)
>consensus
UGCGAUCGCUCGCAUCGUCGCAGCACCAUCAACCUGGGCAUACGCAAGGUGCAGUACGCACCCACCAAACAGGGCAUGCAGCCCUGCACAGUGGUGCGCAAGGACUUCCUUUUGUCGCCC
(((((....))))).....................((((....((..(((((.....)))))(((((..((((((.....)))))).....))))).))...(((........))))))) (-38.03 = -37.95 +  -0.08)

alignment

secondary structure

dotplot

Window 6

Location	18,075,194 – 18,075,314
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	87.33
Mean single sequence MFE	-51.90
Consensus MFE	-41.62
Energy contribution	-42.43
Covariance contribution	0.81
Combinations/Pair	1.20
Mean z-score	-2.04
Structure conservation index	0.80
SVM decision value	0.14
SVM RNA-class probability	0.604314
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18075194 120 - 22407834
GGGCGACAGAAGGAAGUCCUUGCGAACGACGGUGCAGGGCUGGAUGCCCUGCUUGGUCGGUGCGUACUGCACCUUGCGGAUGCCCAGGUUAAUGGUGCUCCUGCGAUGCGAUCGAUCGCA
..((((..((.((....))(((((...(((.(.(((((((.....))))))).).)))(((((.....)))))((((((..(((((......))).))..)))))))))))))..)))). ( -54.00)
>DroVir_CAF1 362054 120 - 1
GGGCGACAACAGAAAGUCCUUGCGCACCACCGUGCAGGGCUGCAUGCCCUGUUUGGUGGGUGCAUACUGCACCUUGCGUAUGCCCAGGUUAAUAGUGCUGCGUCUAUGCGAACGAUCGCA
(((((((........)))..((((((.(((((.(((((((.....))))))).)))))(((((.....))))).)))))).))))......((((........))))((((....)))). ( -53.60)
>DroGri_CAF1 375270 120 - 1
GGGCGACAAAAGGAAGUCCUUGCGCACCACCGUGCAUGGUUGCAUACCAUCCUUGGUGGGUGCAUAUUGCACCUUGCGUAUGCCCAGAUUGAUGGUGCUGCGACGAUGCGAGCGAUCGCA
(((((....((((....)))).))).))....(((((.(((((((((((((.((((.((((((.....)))))).((....))))))...))))))).)))))).))))).((....)). ( -50.30)
>DroWil_CAF1 362641 120 - 1
GGGCGACAAAAGGAAAUCCUUACGUACCACUGUGCAGGGCUGAAUGCCCUGUUUGGUUGGUGCGUACUGCACCUUGCGGAUGCCCAAAUUGAUGGUGCUGCGACGAUGCGAACGAUCGCA
(((((....((((....))))(((((((((((.(((((((.....))))))).))).)))))))).((((.....)))).))))).....(((.((..(((......))).)).)))... ( -51.20)
>DroMoj_CAF1 426678 120 - 1
GGGCGACAGCAGGAAGUCCUUGCGCACCACUGUGCACGGCUGCAAGCCCUGCUUGGUGGGUGCAUACUGCACCUUGCGUAUGCCCAGAUUGAUGGUGCUGCGACGAUGCGAGCGAUCGCA
..((((..(((((....)))(((((.((((((.(((.(((.....))).))).)))))))))))...((((..(((((((.(((((......))).)))))).))))))).))..)))). ( -49.90)
>DroAna_CAF1 266161 120 - 1
GGGCGACAAGAGGAAGUCCUUGCGGACGACGGUGCAGGGCUGGAUGCCCUGUUUGGUGGGCGCGUACUGCACCUUGCGGAUGCCCAGGUUGAUGGUGCUGCGGCGAUGCGACCGGUCGCA
..(((((..((((....)))).(((.(.((.(.(((((((.....))))))).).)).).(((((.(((((((....))..(((((......))).)))))))..))))).)))))))). ( -52.40)
>consensus
GGGCGACAAAAGGAAGUCCUUGCGCACCACCGUGCAGGGCUGCAUGCCCUGCUUGGUGGGUGCAUACUGCACCUUGCGGAUGCCCAGAUUGAUGGUGCUGCGACGAUGCGAACGAUCGCA
(((((....((((....)))).((((.(((((.(((((((.....))))))).)))))(((((.....))))).))))..))))).....................(((((....))))) (-41.62 = -42.43 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:47 2006