Locus 6323

Sequence ID	2L_DroMel_CAF1
Location	17,626,614 – 17,626,715
Length	101
Max. P	0.789836

overview

Window 9

Location	17,626,614 – 17,626,715
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	87.23
Mean single sequence MFE	-28.80
Consensus MFE	-20.36
Energy contribution	-21.92
Covariance contribution	1.56
Combinations/Pair	1.16
Mean z-score	-1.75
Structure conservation index	0.71
SVM decision value	0.08
SVM RNA-class probability	0.574297
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17626614 101 + 22407834
CCAGCGCUCUAGUGAUUUUAGUUUGAAUUUUACGUGCCCAUCAAAAUGAUUAUGGGCACGCACACAGUGGGGAAAGCCCCAGUGCCGAACCGACACACUAC
.........(((((...(..(((((........((((((((..........))))))))((((....(((((....))))))))))))))..)..))))). ( -33.70)
>DroSec_CAF1 21956 101 + 1
CCAGCGCUCUAGUGAUUUUAGUUUGAAUUUUACGUGCCCAUCAAAAUGAUUAUGGGCACGCACACAGUGGGGAAAGGCCCGGUGCCGAACCCACACACUAC
.........(((((..................(((((((((..........)))))))))......(((((....(((.....)))...))))).))))). ( -33.30)
>DroSim_CAF1 12178 101 + 1
CCAGCGCUCUAGUGAUUUUAGUUUGAAUUUUACGUGCCCAUCAAAAUGAUUAUGGGCACGCACACAGUGGGGAAAGGCCCGGUGCCGAACCCACGCACUAC
...((((....((((..((......))..))))((((((((..........)))))))))).....(((((....(((.....)))...)))))))..... ( -34.10)
>DroYak_CAF1 22011 101 + 1
CCAGCGCCCUAGUGAUUUUAGUUUGAAUUUUACGUGCCCAUCAAAGUGAUUAUGGGCACGCACACAGUGGGGACAGCCACAGCGCCGCGCCCACACACUAC
.........(((((..................(((((((((..((....)))))))))))......((((((...((....))....).))))).))))). ( -30.30)
>DroAna_CAF1 4340 89 + 1
CCAACGCUCUAGUGAUUUUAGUUUGAAUUUUACGUGCCCAUCAAAAUGAUUAUGAGCACGCACACAGC---------CCC---GCUAAACACUCCCUCUCC
..........((((..((((((..........(((((.(((..........))).)))))........---------...---))))))))))........ ( -12.60)
>consensus
CCAGCGCUCUAGUGAUUUUAGUUUGAAUUUUACGUGCCCAUCAAAAUGAUUAUGGGCACGCACACAGUGGGGAAAGCCCCAGUGCCGAACCCACACACUAC
.........(((((......(((((.......(((((((((..........)))))))))....((.((((......)))).)).))))).....))))). (-20.36 = -21.92 +   1.56)

alignment

secondary structure

dotplot

Window 0

Location	17,626,614 – 17,626,715
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	87.23
Mean single sequence MFE	-34.38
Consensus MFE	-24.74
Energy contribution	-25.30
Covariance contribution	0.56
Combinations/Pair	1.27
Mean z-score	-2.08
Structure conservation index	0.72
SVM decision value	0.58
SVM RNA-class probability	0.789836
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17626614 101 - 22407834
GUAGUGUGUCGGUUCGGCACUGGGGCUUUCCCCACUGUGUGCGUGCCCAUAAUCAUUUUGAUGGGCACGUAAAAUUCAAACUAAAAUCACUAGAGCGCUGG
.((((((...(((...(((.(((((....))))).))).(((((((((((..........))))))))))).................)))...)))))). ( -35.70)
>DroSec_CAF1 21956 101 - 1
GUAGUGUGUGGGUUCGGCACCGGGCCUUUCCCCACUGUGUGCGUGCCCAUAAUCAUUUUGAUGGGCACGUAAAAUUCAAACUAAAAUCACUAGAGCGCUGG
.(((((((((((...(((.....)))....)))))....(((((((((((..........))))))))))).......................)))))). ( -35.80)
>DroSim_CAF1 12178 101 - 1
GUAGUGCGUGGGUUCGGCACCGGGCCUUUCCCCACUGUGUGCGUGCCCAUAAUCAUUUUGAUGGGCACGUAAAAUUCAAACUAAAAUCACUAGAGCGCUGG
.(((((((((((...(((.....)))....)))))....(((((((((((..........))))))))))).......................)))))). ( -38.40)
>DroYak_CAF1 22011 101 - 1
GUAGUGUGUGGGCGCGGCGCUGUGGCUGUCCCCACUGUGUGCGUGCCCAUAAUCACUUUGAUGGGCACGUAAAAUUCAAACUAAAAUCACUAGGGCGCUGG
.(((((((((((.(((((......))))).)))))....(((((((((((..........))))))))))).......................)))))). ( -40.60)
>DroAna_CAF1 4340 89 - 1
GGAGAGGGAGUGUUUAGC---GGG---------GCUGUGUGCGUGCUCAUAAUCAUUUUGAUGGGCACGUAAAAUUCAAACUAAAAUCACUAGAGCGUUGG
...(....(((((((((.---..(---------..(...(((((((((((..........)))))))))))..)..)...)))))..))))....)..... ( -21.40)
>consensus
GUAGUGUGUGGGUUCGGCACCGGGCCUUUCCCCACUGUGUGCGUGCCCAUAAUCAUUUUGAUGGGCACGUAAAAUUCAAACUAAAAUCACUAGAGCGCUGG
.(((((((((((((((....))))......)))))....(((((((((((..........))))))))))).......................)))))). (-24.74 = -25.30 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:21 2006