Locus 8526

Sequence ID	3R_DroMel_CAF1
Location	22,757,965 – 22,758,103
Length	138
Max. P	0.935050

overview

Window 4

Location	22,757,965 – 22,758,063
Length	98
Sequences	4
Columns	118
Reading direction	forward
Mean pairwise identity	72.70
Mean single sequence MFE	-32.80
Consensus MFE	-18.31
Energy contribution	-19.25
Covariance contribution	0.94
Combinations/Pair	1.30
Mean z-score	-2.03
Structure conservation index	0.56
SVM decision value	1.24
SVM RNA-class probability	0.935050
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22757965 98 + 27905053
UCAUACCCACUCCA--GCAUCCCGAGAACUUGAGAUUCUC------------------GUGUGCCUUGGGUGCAAAGGUGGCAAGUUCUGUUGGAUAUGUCACCAUCUCAUCCGCUCG
..............--(((.((((((.((.((((...)))------------------).))..)))))))))...(((((((.((((....)))).))))))).............. ( -31.60)
>DroSec_CAF1 47594 100 + 1
UCAUACCCACUCCAGAGCAUCUCGAGAACUUGAGAUUCCA------------------GUGCCUCUUGGGUGCAAAGGUGGCAAGUUCUGUUGGAUAUGUCACCAUCUCAUCCGCUCG
..............(((((((((((....)))))))....------------------(..((.....))..)...(((((((.((((....)))).))))))).........)))). ( -33.80)
>DroSim_CAF1 47718 100 + 1
UCAUACCCACUCCAGAGCAUCUCGAGAACUUGAGAUUCCA------------------GUGCCUCUUGGGUGCAAAGGUGGCAAGUUCUGUUGGAUAUGUCACCAUCUCAUCCGCUCG
..............(((((((((((....)))))))....------------------(..((.....))..)...(((((((.((((....)))).))))))).........)))). ( -33.80)
>DroAna_CAF1 48353 113 + 1
UCAUUC-AGCUCC----CACCCCCAAAAUCUCAGUUUCUUAUGCUGUCAUCAGCAUCUGUAUCUCAAAGGUGGAGAGGUGGCAGGUUCUGUCGGAUGUCUGAGUGUUUUGUCCGCUCC
.(((((-..((((----((((..........(((......((((((....))))))))).........))))).)))..(((((...))))))))))...(((((.......))))). ( -32.01)
>consensus
UCAUACCCACUCCA__GCAUCCCGAGAACUUGAGAUUCCA__________________GUGCCUCUUGGGUGCAAAGGUGGCAAGUUCUGUUGGAUAUGUCACCAUCUCAUCCGCUCG
......................((((....((((((......................((((((...))))))...(((((((.((((....)))).)))))))))))))....)))) (-18.31 = -19.25 +   0.94)

alignment

secondary structure

dotplot

Window 5

Location	22,758,003 – 22,758,103
Length	100
Sequences	4
Columns	118
Reading direction	forward
Mean pairwise identity	74.62
Mean single sequence MFE	-34.70
Consensus MFE	-21.62
Energy contribution	-23.50
Covariance contribution	1.88
Combinations/Pair	1.22
Mean z-score	-1.55
Structure conservation index	0.62
SVM decision value	-0.02
SVM RNA-class probability	0.523018
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22758003 100 + 27905053
------------------GUGUGCCUUGGGUGCAAAGGUGGCAAGUUCUGUUGGAUAUGUCACCAUCUCAUCCGCUCGCAUGCGGAUACAAUGUGUUCGGUGGAGCUUUUCUCAUCGA
------------------.((..((...))..))..(((((((.((((....)))).))))))).....((((((......)))))).........(((((((........))))))) ( -35.20)
>DroSec_CAF1 47634 100 + 1
------------------GUGCCUCUUGGGUGCAAAGGUGGCAAGUUCUGUUGGAUAUGUCACCAUCUCAUCCGCUCGCAUGCGGAUACAAUGUGUUGGGGGCAGCUUUUCUCAUCGA
------------------.(((((((..((..((..(((((((.((((....)))).))))))).....((((((......))))))....))..))))))))).............. ( -37.50)
>DroSim_CAF1 47758 100 + 1
------------------GUGCCUCUUGGGUGCAAAGGUGGCAAGUUCUGUUGGAUAUGUCACCAUCUCAUCCGCUCGCAUGCGGAUACAAUGUGUUGGGGGCAGCUUUUCUCAUCGA
------------------.(((((((..((..((..(((((((.((((....)))).))))))).....((((((......))))))....))..))))))))).............. ( -37.50)
>DroAna_CAF1 48388 111 + 1
AUGCUGUCAUCAGCAUCUGUAUCUCAAAGGUGGAGAGGUGGCAGGUUCUGUCGGAUGUCUGAGUGUUUUGUCCGCUCCCAUGCUGAUACAAUGUGGU-------GUUUUUUAGAUCCA
((((((....))))))............((..(((((..(.((.(((.(((((((((...(((((.......))))).))).)))))).))).)).)-------..)))))....)). ( -28.60)
>consensus
__________________GUGCCUCUUGGGUGCAAAGGUGGCAAGUUCUGUUGGAUAUGUCACCAUCUCAUCCGCUCGCAUGCGGAUACAAUGUGUUGGGGGCAGCUUUUCUCAUCGA
...................((((((...........(((((((.((((....)))).))))))).....((((((......))))))...........)))))).............. (-21.62 = -23.50 +   1.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:13:19 2006