Locus 980

Sequence ID	2L_DroMel_CAF1
Location	2,823,628 – 2,823,728
Length	100
Max. P	0.701625

overview

Window 5

Location	2,823,628 – 2,823,728
Length	100
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	91.20
Mean single sequence MFE	-28.36
Consensus MFE	-21.84
Energy contribution	-22.88
Covariance contribution	1.04
Combinations/Pair	1.04
Mean z-score	-1.70
Structure conservation index	0.77
SVM decision value	0.35
SVM RNA-class probability	0.701625
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2823628 100 + 22407834
GAUAGUUUUGAACGCAGUACGCCUGAUGGGCGUAUCUGUCUGUCCUGGUCACAGGACCUCCCAGCUUCAUAUCCGUCUUUUCGCCAUUAAGCAUUGUUAU
((..(...(((((((((((((((.....)))))).))))..((((((....))))))......).))))...)..)).....((......))........ ( -28.40)
>DroSec_CAF1 7315 100 + 1
GAUAGUUUUGAACGCAGUACGCCUGAUCGGCGUAUCUGUCUGUCCUGGUCACAGGACCUCCCAGCUUCAUAUCCGUCUUUUCCCCAUUGAACAUGGUUAU
((..(...(((((((((((((((.....)))))).))))..((((((....))))))......).))))...)..))......((((.....)))).... ( -28.90)
>DroSim_CAF1 9514 100 + 1
GAUAGUUUUGAACGCAGUACGCCUGAUCGGCGUAUCUGUCUGUCCUGGUCACAGGACCUCCCAGCUUCAUAUCCGUCUUUUCCCCAUUGAACAUGGUUAU
((..(...(((((((((((((((.....)))))).))))..((((((....))))))......).))))...)..))......((((.....)))).... ( -28.90)
>DroEre_CAF1 7196 100 + 1
GAUAGUUUUGAACGCAGUAGGCCUGCUGGGCGUAUCUAUCGGUCCUGGUCACAGGACCUCCCAGCUGCAUAUCCUUCCUCUCACCAUUAAGCAUGGUUAU
(((((...((..(((((.....)))).)..))...)))))(((((((....)))))))..((((((.......................))).))).... ( -30.00)
>DroYak_CAF1 7246 100 + 1
GAUAGUUUUGAACGCAGAAGGCCUGAUGGGCGUAUCUAUCUGUCCUGGUCACAGGACCACCCAGCUGCAUAUCCUUUCUCUCACCAUUUAACAUGGUUAU
((((((.....))((((..((...((((((....)))))).((((((....))))))...))..)))).)))).........(((((.....)))))... ( -25.60)
>consensus
GAUAGUUUUGAACGCAGUACGCCUGAUGGGCGUAUCUGUCUGUCCUGGUCACAGGACCUCCCAGCUUCAUAUCCGUCUUUUCACCAUUAAACAUGGUUAU
((..(...((((.((.(((((((.....)))))))......((((((....))))))......))))))...)..))......((((.....)))).... (-21.84 = -22.88 +   1.04)

alignment

secondary structure

dotplot

Window 6

Location	2,823,628 – 2,823,728
Length	100
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	91.20
Mean single sequence MFE	-29.38
Consensus MFE	-22.34
Energy contribution	-22.90
Covariance contribution	0.56
Combinations/Pair	1.04
Mean z-score	-1.53
Structure conservation index	0.76
SVM decision value	-0.02
SVM RNA-class probability	0.520964
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2823628 100 - 22407834
AUAACAAUGCUUAAUGGCGAAAAGACGGAUAUGAAGCUGGGAGGUCCUGUGACCAGGACAGACAGAUACGCCCAUCAGGCGUACUGCGUUCAAAACUAUC
....(...((((.(((.((......))..))).))))..)(((((((((....)))))).(.(((.((((((.....)))))))))).)))......... ( -26.50)
>DroSec_CAF1 7315 100 - 1
AUAACCAUGUUCAAUGGGGAAAAGACGGAUAUGAAGCUGGGAGGUCCUGUGACCAGGACAGACAGAUACGCCGAUCAGGCGUACUGCGUUCAAAACUAUC
....((((.....))))(((...(.(((........(((....((((((....))))))...))).((((((.....)))))))))).)))......... ( -29.50)
>DroSim_CAF1 9514 100 - 1
AUAACCAUGUUCAAUGGGGAAAAGACGGAUAUGAAGCUGGGAGGUCCUGUGACCAGGACAGACAGAUACGCCGAUCAGGCGUACUGCGUUCAAAACUAUC
....((((.....))))(((...(.(((........(((....((((((....))))))...))).((((((.....)))))))))).)))......... ( -29.50)
>DroEre_CAF1 7196 100 - 1
AUAACCAUGCUUAAUGGUGAGAGGAAGGAUAUGCAGCUGGGAGGUCCUGUGACCAGGACCGAUAGAUACGCCCAGCAGGCCUACUGCGUUCAAAACUAUC
...(((((.....)))))((.((....((.((((.((((((.(((((((....)))))))..........))))))((.....))))))))....)).)) ( -33.40)
>DroYak_CAF1 7246 100 - 1
AUAACCAUGUUAAAUGGUGAGAGAAAGGAUAUGCAGCUGGGUGGUCCUGUGACCAGGACAGAUAGAUACGCCCAUCAGGCCUUCUGCGUUCAAAACUAUC
...(((((.....))))).........((.((((((..((((.((((((....)))))).(((.(......).)))..)))).))))))))......... ( -28.00)
>consensus
AUAACCAUGUUCAAUGGGGAAAAGACGGAUAUGAAGCUGGGAGGUCCUGUGACCAGGACAGACAGAUACGCCCAUCAGGCGUACUGCGUUCAAAACUAUC
....((((.....)))).........((((.............((((((....)))))).(.(((.((((((.....))))))))))))))......... (-22.34 = -22.90 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:15 2006