Locus 2254

Sequence ID	3L_DroMel_CAF1
Location	6,253,333 – 6,253,425
Length	92
Max. P	0.999585

overview

Window 3

Location	6,253,333 – 6,253,425
Length	92
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	98.71
Mean single sequence MFE	-43.33
Consensus MFE	-35.83
Energy contribution	-41.83
Covariance contribution	6.00
Combinations/Pair	1.00
Mean z-score	-2.80
Structure conservation index	0.83
SVM decision value	1.55
SVM RNA-class probability	0.963227
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6253333 92 + 23771897
CUGGCCGCCUCAAUCUGCGGCAUCAUCUCGAGGCGAUC--UGGCCAAGAGCCGUGAGGCUGCGUGAGCCGUCUUGGCCAAGUCUGGCAUUUUCG
...((((((((..................)))))((..--((((((((((((....))).((....))..)))))))))..)).)))....... ( -43.77)
>DroSec_CAF1 19073 92 + 1
CUGGCCGCCUCAAUCUGCGGCAUCAUCUCGAGGCGAUC--UGGCCAAGAGCCGUGAGGCUGCGUGAGCCGUCUUGGCCAAGUCUGGCAUUUUCG
...((((((((..................)))))((..--((((((((((((....))).((....))..)))))))))..)).)))....... ( -43.77)
>DroSim_CAF1 19205 92 + 1
CUGGCCGCCUCAAUCUGCGGCAUCAUCUCGAGGCGAUC--UGGCCAAGAGCCGUGAGGCUGCGUGAGCCGUCUUGGCCAAGUCUGGCAUUUUCG
...((((((((..................)))))((..--((((((((((((....))).((....))..)))))))))..)).)))....... ( -43.77)
>DroEre_CAF1 19049 92 + 1
CUGGCCGCCUCAAUCUGCGGCAUCAUCUCGAGGCGAUC--UGGCCAAGAGCCGUGAGGCUGCGUGAGCCGUCUUGGCCAAGUCUGGCGUUUUCG
...((((((((..................)))))((..--((((((((((((....))).((....))..)))))))))..)).)))....... ( -43.77)
>DroYak_CAF1 22304 94 + 1
CUGGCCGCCUCAAUCUGCGGCAUCAUCUCGAGGCGAUCUCUGGCCAAGAGCCGUGAGGCUGCGUGAGCCGUCUUGGCCAAGUCUGGCAUUUUCG
...((((((((..................)))))((.((.((((((((((((....))).((....))..))))))))))))).)))....... ( -41.57)
>consensus
CUGGCCGCCUCAAUCUGCGGCAUCAUCUCGAGGCGAUC__UGGCCAAGAGCCGUGAGGCUGCGUGAGCCGUCUUGGCCAAGUCUGGCAUUUUCG
...((((((((..................)))))(((...((((((((((((....))).((....))..))))))))).))).)))....... (-35.83 = -41.83 +   6.00)

alignment

secondary structure

dotplot

Window 4

Location	6,253,333 – 6,253,425
Length	92
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	98.71
Mean single sequence MFE	-41.40
Consensus MFE	-38.92
Energy contribution	-38.92
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.91
Structure conservation index	0.94
SVM decision value	3.75
SVM RNA-class probability	0.999585
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6253333 92 - 23771897
CGAAAAUGCCAGACUUGGCCAAGACGGCUCACGCAGCCUCACGGCUCUUGGCCA--GAUCGCCUCGAGAUGAUGCCGCAGAUUGAGGCGGCCAG
.......(((.((.((((((((((..((....)).(((....))))))))))))--).))(((((((..((......))..))))))))))... ( -41.60)
>DroSec_CAF1 19073 92 - 1
CGAAAAUGCCAGACUUGGCCAAGACGGCUCACGCAGCCUCACGGCUCUUGGCCA--GAUCGCCUCGAGAUGAUGCCGCAGAUUGAGGCGGCCAG
.......(((.((.((((((((((..((....)).(((....))))))))))))--).))(((((((..((......))..))))))))))... ( -41.60)
>DroSim_CAF1 19205 92 - 1
CGAAAAUGCCAGACUUGGCCAAGACGGCUCACGCAGCCUCACGGCUCUUGGCCA--GAUCGCCUCGAGAUGAUGCCGCAGAUUGAGGCGGCCAG
.......(((.((.((((((((((..((....)).(((....))))))))))))--).))(((((((..((......))..))))))))))... ( -41.60)
>DroEre_CAF1 19049 92 - 1
CGAAAACGCCAGACUUGGCCAAGACGGCUCACGCAGCCUCACGGCUCUUGGCCA--GAUCGCCUCGAGAUGAUGCCGCAGAUUGAGGCGGCCAG
.......(((.((.((((((((((..((....)).(((....))))))))))))--).))(((((((..((......))..))))))))))... ( -41.90)
>DroYak_CAF1 22304 94 - 1
CGAAAAUGCCAGACUUGGCCAAGACGGCUCACGCAGCCUCACGGCUCUUGGCCAGAGAUCGCCUCGAGAUGAUGCCGCAGAUUGAGGCGGCCAG
.......(((.(((((((((((((..((....)).(((....)))))))))))).)).))(((((((..((......))..))))))))))... ( -40.30)
>consensus
CGAAAAUGCCAGACUUGGCCAAGACGGCUCACGCAGCCUCACGGCUCUUGGCCA__GAUCGCCUCGAGAUGAUGCCGCAGAUUGAGGCGGCCAG
.......(((.((..(((((((((..((....)).(((....))))))))))))....))(((((((..((......))..))))))))))... (-38.92 = -38.92 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:53 2006