Locus 8167

Sequence ID	3L_DroMel_CAF1
Location	21,513,411 – 21,513,691
Length	280
Max. P	0.950867

overview

Window 8

Location	21,513,411 – 21,513,531
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	98.89
Mean single sequence MFE	-26.40
Consensus MFE	-26.40
Energy contribution	-26.40
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.30
Structure conservation index	1.00
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21513411 120 + 23771897
CAUUAAAUUUGUAACAAGUUAGCAGCUGGCGCCAAUUCACAAGCGUCGUGUCGAGUGAUUAAACAAUCGCAUUGAUACCCAGCCCAGUCCAUCCGAGCUGAUUCCAAUUCCAAUUCACAC
................(((((((.((((((((..........)))..(((((((((((((....)))))).))))))))))))....((.....)))))))))................. ( -26.40)
>DroSec_CAF1 18529 120 + 1
CAUUAAAUUUGUAACAAGUUAGCAGCUGGCGCCAAUUCACAAGCGUCGUGUCGAGUGAUUAAACAAUCGCAUUGAUACCCAGCCCAGUCCAUUCGAGCUGAUUCCAAUUCCAAUUCACAC
................(((((((.((((((((..........)))..(((((((((((((....)))))).))))))))))))....((.....)))))))))................. ( -26.40)
>DroSim_CAF1 18152 120 + 1
CAUUAAAUUUUUAACAAGUUAGCAGCUGGCGCCAAUUCACAAGCGUCGUGUCGAGUGAUUAAACAAUCGCAUUGAUACCCAGCCCAGUCCAUUCGAGCUGAUUCCAAUUCCAAUUCACAC
................(((((((.((((((((..........)))..(((((((((((((....)))))).))))))))))))....((.....)))))))))................. ( -26.40)
>consensus
CAUUAAAUUUGUAACAAGUUAGCAGCUGGCGCCAAUUCACAAGCGUCGUGUCGAGUGAUUAAACAAUCGCAUUGAUACCCAGCCCAGUCCAUUCGAGCUGAUUCCAAUUCCAAUUCACAC
................(((((((.((((((((..........)))..(((((((((((((....)))))).))))))))))))....((.....)))))))))................. (-26.40 = -26.40 +   0.00)

alignment

secondary structure

dotplot

Window 9

Location	21,513,451 – 21,513,571
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	99.44
Mean single sequence MFE	-27.27
Consensus MFE	-27.49
Energy contribution	-27.27
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-1.39
Structure conservation index	1.01
SVM decision value	0.13
SVM RNA-class probability	0.599151
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21513451 120 + 23771897
AAGCGUCGUGUCGAGUGAUUAAACAAUCGCAUUGAUACCCAGCCCAGUCCAUCCGAGCUGAUUCCAAUUCCAAUUCACACAAUCCCGAUCCCAAUUGAAUUUCGGAUUGACAGGUUCAUA
..((...(((((((((((((....)))))).)))))))...))((.(((.((((((...(((((.((((.....((..........))....))))))))))))))).))).))...... ( -29.20)
>DroSec_CAF1 18569 120 + 1
AAGCGUCGUGUCGAGUGAUUAAACAAUCGCAUUGAUACCCAGCCCAGUCCAUUCGAGCUGAUUCCAAUUCCAAUUCACACAAUCCCGAUCCCAAUUGAAUUUCGGAUUGACAGGUUCAUA
..((...(((((((((((((....)))))).)))))))...))((.(((.((((((...(((((.((((.....((..........))....))))))))))))))).))).))...... ( -26.30)
>DroSim_CAF1 18192 120 + 1
AAGCGUCGUGUCGAGUGAUUAAACAAUCGCAUUGAUACCCAGCCCAGUCCAUUCGAGCUGAUUCCAAUUCCAAUUCACACAAUCCCGAUCCCAAUUGAAUUUCGGAUUGACAGGUUCAUA
..((...(((((((((((((....)))))).)))))))...))((.(((.((((((...(((((.((((.....((..........))....))))))))))))))).))).))...... ( -26.30)
>consensus
AAGCGUCGUGUCGAGUGAUUAAACAAUCGCAUUGAUACCCAGCCCAGUCCAUUCGAGCUGAUUCCAAUUCCAAUUCACACAAUCCCGAUCCCAAUUGAAUUUCGGAUUGACAGGUUCAUA
..((...(((((((((((((....)))))).)))))))...))((.(((.((((((...(((((.((((.....((..........))....))))))))))))))).))).))...... (-27.49 = -27.27 +  -0.22)

alignment

secondary structure

dotplot

Window 0

Location	21,513,571 – 21,513,691
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	99.44
Mean single sequence MFE	-39.37
Consensus MFE	-39.59
Energy contribution	-39.37
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-2.22
Structure conservation index	1.01
SVM decision value	1.41
SVM RNA-class probability	0.950867
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21513571 120 + 23771897
AACGGCAUUGUUCGCGUGUUUGUAUUUGAAUUUCAUGCCCGAAUACAAUUGCUCUUUUCCUGCCCACACAUCCUCAUCGAGGAUCUCACAAAAGGCGGGAAAGAGGCUUACGCGUCGGGC
.........(((((((((((((((((((...........)))))))))..((..((((((((((.....((((((...)))))).........))))))))))..))..))))).))))) ( -40.34)
>DroSec_CAF1 18689 120 + 1
AACGGCAUUGUUCGCGUGUUUGUAUUUGAAUUUCAUGCCCGAAUACAAUUGCUCUUUUCCUGCCCACACAUUCUCAUCGAGGAUCUCACAAAAGGCGGGAAAGAGGCUUACGCGUCGGGC
.........(((((((((((((((((((...........)))))))))..((..((((((((((.....((((((...)))))).........))))))))))..))..))))).))))) ( -37.44)
>DroSim_CAF1 18312 120 + 1
AACGGCAUUGUUCGCGUGUUUGUAUUUGAAUUUCAUGCCCGAAUACAAUUGCUCUUUUCCUGCCCACACAUCCUCAUCGAGGAUCUCACAAAAGGCGGGAAAGAGGCUUACGCGUCGGGC
.........(((((((((((((((((((...........)))))))))..((..((((((((((.....((((((...)))))).........))))))))))..))..))))).))))) ( -40.34)
>consensus
AACGGCAUUGUUCGCGUGUUUGUAUUUGAAUUUCAUGCCCGAAUACAAUUGCUCUUUUCCUGCCCACACAUCCUCAUCGAGGAUCUCACAAAAGGCGGGAAAGAGGCUUACGCGUCGGGC
.........(((((((((((((((((((...........)))))))))..((..((((((((((.....((((((...)))))).........))))))))))..))..))))).))))) (-39.59 = -39.37 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:12 2006