Locus 2395

Sequence ID	X_DroMel_CAF1
Location	6,405,922 – 6,406,074
Length	152
Max. P	0.950070

overview

Window 7

Location	6,405,922 – 6,406,034
Length	112
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	89.46
Mean single sequence MFE	-38.40
Consensus MFE	-30.40
Energy contribution	-30.60
Covariance contribution	0.20
Combinations/Pair	1.21
Mean z-score	-2.57
Structure conservation index	0.79
SVM decision value	0.37
SVM RNA-class probability	0.706933
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6405922 112 + 22224390
AGACAUCGCUGAAGGGCAAGGAUGAGGACUCCGAUUUGGAGCUGGAGAUCGAGGAAAUUUUCGAUUUGCAGCGACUGGAGAAGCUUUUGGAAACAGUUGCCAGCUACGAAAU
.....(((..(...(((((....((((.(((((....(..((((.(((((((((....))))))))).))))..))))))...))))((....)).)))))..)..)))... ( -36.60)
>DroSec_CAF1 31328 112 + 1
AGACUUCGUUGCAGGGUAAGGAUGAGGACUCCGAUUUGGAGCUGGAGAUCGAGGAAAUUUUCGAUCUGCAGCGACUGGAGAAGCUAUUGGAAACAGUUGCCAGCUACGAAAU
....(((((.((..(((((.........(((((....(..((((.(((((((((....))))))))).))))..))))))......(((....)))))))).)).))))).. ( -41.10)
>DroSim_CAF1 30471 112 + 1
AGACUUCGCUGAAGGGUAAGGAUGAGGAUUCCGAUUUGGAGCUGGAGAUCGAGGACAUUUUCGAUCUGCAGCGACUGGAGAAGCUAUUGGAAACAGUUGCCAGCUACGAAAU
.......((((........(((.......)))..((..(.((((.(((((((((....))))))))).))))..)..))...((.((((....)))).))))))........ ( -36.90)
>DroEre_CAF1 31481 112 + 1
AGACUUCGCUGAAGGGUAAGGAUGAGGACUCCGAUUUGGAGCUGGAGAUCGAGGAAAUUUUCGAUCUGCAGCGACUGGAGAAGCUUUUGGAAACGGUUGCAAGCUACGAAAU
...(((((((.........)).))))).(((((....(..((((.(((((((((....))))))))).))))..))))))..((..(((....)))..))............ ( -35.80)
>DroYak_CAF1 34699 112 + 1
AGACUUCGCUGAAGGGUAAGGAUGAGGACUCAGAUUUGGAGCUAGAGAUCGAGGAAAUUUUCGAUCUUCAGCGACUGGAGAAGCUUUUGGAAACAGUUGCCAGCUACGAACU
.......((((..((((..........))))...((..(.(((..(((((((((....)))))))))..)))..)..))...((..(((....)))..))))))........ ( -32.40)
>DroAna_CAF1 41526 112 + 1
AGCCAUCCCUGAAGGGCAGGGAGGACGACUCCGACCUGGAGCUGGAGAUCGAGGAGAUCUUCGACUUGCAGCGCCUGGAACAGUUGCUGGAAACGGUGUCCAGCUACGAGAU
(((..((((((.....))))))((((((((....((.((.((((.((.((((((....)))))).)).)))).)).))...))))((((....)))))))).)))....... ( -47.60)
>consensus
AGACUUCGCUGAAGGGUAAGGAUGAGGACUCCGAUUUGGAGCUGGAGAUCGAGGAAAUUUUCGAUCUGCAGCGACUGGAGAAGCUUUUGGAAACAGUUGCCAGCUACGAAAU
.......((((.................(((((....(..((((.(((((((((....))))))))).))))..))))))..((..(((....)))..))))))........ (-30.40 = -30.60 +   0.20)

alignment

secondary structure

dotplot

Window 8

Location	6,405,954 – 6,406,074
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	76.52
Mean single sequence MFE	-43.40
Consensus MFE	-25.86
Energy contribution	-26.07
Covariance contribution	0.20
Combinations/Pair	1.42
Mean z-score	-2.10
Structure conservation index	0.60
SVM decision value	1.40
SVM RNA-class probability	0.950070
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6405954 120 + 22224390
GAUUUGGAGCUGGAGAUCGAGGAAAUUUUCGAUUUGCAGCGACUGGAGAAGCUUUUGGAAACAGUUGCCAGCUACGAAAUGCGUCGCCGCAUUCGUGCACAAAUGCGUCUUAUACGCAAG
..((..(.((((.(((((((((....))))))))).))))..)..))...((..(((....)))..))..((.(((((.((((....))))))))))).....(((((.....))))).. ( -42.80)
>DroPse_CAF1 37981 116 + 1
----UCGAUCUGGAGAUUGAGGAGAUCUUCGAUCUGCAGGUACUCGAACAGCUCCUGGAGACAGUGAGCAGCUACGAGAUGCGUCGCCGGAUACGCGCCCAGAUGCGGCUCAUCAGAAAG
----((((((((.(((((((((....))))))))).))))...))))...(((((((....))).))))......(((.((((((((((....)).))...)))))).)))......... ( -47.50)
>DroWil_CAF1 32757 116 + 1
----UCGAUUUGGAAAUCGAAGAGAUAUUCGAUCUGCAGAUCUUGGAACAACUUUUAGAGACCGUAACCAGUUACGAGUUGCGUCGUCGUAUACGAGCUCAGAUGCGUUUGAUCAGAAAG
----..((((((.(.((((((......)))))).).)))))).........(((((.((((((((((....))))).)))(((((.(((....))).....)))))......)).))))) ( -30.20)
>DroMoj_CAF1 43037 112 + 1
--------GCUGGAGAUUGAGGAGAUCUUCGAUCUGCAGACGCUGGAGCAGCUGCUGGAGACGGUGAGCAGCUAUGAGCUGCGUCGACGCAUUCGCGCCCAGAUACGUCUGAUUAAGAAG
--------.....(((((((((....))))))))).((((((((((.((((((((((....)....)))))))..(((.((((....)))))))..))))))...))))))......... ( -45.50)
>DroAna_CAF1 41558 120 + 1
GACCUGGAGCUGGAGAUCGAGGAGAUCUUCGACUUGCAGCGCCUGGAACAGUUGCUGGAAACGGUGUCCAGCUACGAGAUGCGCCGCAGGAUCCGCGCCCAAAUGCGCCUCAUCCGGAAG
...(((((...(((..((((((....))))))(((((.(((((((((......((((....)))).))))).........)))).))))).)))((((......))))....)))))... ( -46.90)
>DroPer_CAF1 37999 116 + 1
----UCGAUCUGGAGAUUGAGGAGAUCUUCGAUCUGCAGGUACUCGAACAGCUCCUGGAGACAGUGAGCAGCUACGAGAUGCGUCGCCGGAUACGCGCCCAGAUGCGGCUCAUCAGAAAG
----((((((((.(((((((((....))))))))).))))...))))...(((((((....))).))))......(((.((((((((((....)).))...)))))).)))......... ( -47.50)
>consensus
____UCGAGCUGGAGAUCGAGGAGAUCUUCGAUCUGCAGAUACUGGAACAGCUCCUGGAGACAGUGACCAGCUACGAGAUGCGUCGCCGGAUACGCGCCCAGAUGCGUCUCAUCAGAAAG
........((((.(((((((((....))))))))).)))).........((((.(((....))).....))))..(((.((((((((((....)).))...)))))).)))......... (-25.86 = -26.07 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:30 2006