Locus 1396

Sequence ID	3R_DroMel_CAF1
Location	4,076,740 – 4,076,900
Length	160
Max. P	0.850124

overview

Window 8

Location	4,076,740 – 4,076,860
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	98.33
Mean single sequence MFE	-34.15
Consensus MFE	-32.07
Energy contribution	-32.18
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-1.61
Structure conservation index	0.94
SVM decision value	0.05
SVM RNA-class probability	0.559370
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4076740 120 + 27905053
ACAGUCGAGGAAAUUAUGGAGCGCUGACCAACAAACCAAAACCAAAGCGCUGGCAAUUGGAAAGUUGUUGUUAUGCUCAAGAGAGCAGCGAAGGAGCCAAGUGCCGGACUGGAAUAUCGU
.(((((.............((((((....................))))))((((.((((....(..((((..(((((....)))))))))..)..)))).)))).)))))......... ( -36.25)
>DroEre_CAF1 5152 120 + 1
ACAGCCGAGGAAAUUAUGGAGCGCUGACCAACAAACCAAAACCAAAGCGCUGGCAAUUGGAAAGUUGUUGUUAUGCUCAAGAGAGCAGCGAAGGAGCCAAGUGCCGGACUGGAAUAUCGC
.(((((.............((((((....................))))))((((.((((....(..((((..(((((....)))))))))..)..)))).)))))).)))......... ( -34.85)
>DroYak_CAF1 2311 120 + 1
ACAGCCGAGGAAAUUAUGGAGCGCUGACCAACAAACCAAAACCAAAGCGCUGGCAAUUGGAAAGUUGUUGUUAUGCUCAAGAGAGCAGCGAAGGAGACAAGUGCCGGACUGGAAUAUCGC
.((((((............((((((....................))))))(((((((....)))))))....(((((....)))))(((..(....)...)))))).)))......... ( -31.35)
>consensus
ACAGCCGAGGAAAUUAUGGAGCGCUGACCAACAAACCAAAACCAAAGCGCUGGCAAUUGGAAAGUUGUUGUUAUGCUCAAGAGAGCAGCGAAGGAGCCAAGUGCCGGACUGGAAUAUCGC
.(((((.............((((((....................))))))((((.((((....(..((((..(((((....)))))))))..)..)))).)))))).)))......... (-32.07 = -32.18 +   0.11)

alignment

secondary structure

dotplot

Window 9

Location	4,076,780 – 4,076,900
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	97.78
Mean single sequence MFE	-34.37
Consensus MFE	-31.60
Energy contribution	-32.27
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-2.23
Structure conservation index	0.92
SVM decision value	0.78
SVM RNA-class probability	0.850124
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4076780 120 - 27905053
CUUGACUCAAACGCUGGUGAUUUAUUUAGCGACACAUGAAACGAUAUUCCAGUCCGGCACUUGGCUCCUUCGCUGCUCUCUUGAGCAUAACAACAACUUUCCAAUUGCCAGCGCUUUGGU
......(((((((((((..(((.....(((((..........(((......))).(((.....)))...)))))((((....))))................)))..)))))).))))). ( -32.00)
>DroEre_CAF1 5192 120 - 1
CUUGACUGAAACGCUGGUGAUUUAUUUAGCGACACAUGCAGCGAUAUUCCAGUCCGGCACUUGGCUCCUUCGCUGCUCUCUUGAGCAUAACAACAACUUUCCAAUUGCCAGCGCUUUGGU
....((..((.((((((..(((.....(((((((..(((.(.(((......)))).)))..))......)))))((((....))))................)))..)))))).))..)) ( -35.10)
>DroYak_CAF1 2351 120 - 1
CUUGACUGAAACGCUGGUGAUUUAUUUAGCGACACAUGCAGCGAUAUUCCAGUCCGGCACUUGUCUCCUUCGCUGCUCUCUUGAGCAUAACAACAACUUUCCAAUUGCCAGCGCUUUGGU
....((..((.((((((..(((........((((..(((.(.(((......)))).)))..))))........(((((....)))))...............)))..)))))).))..)) ( -36.00)
>consensus
CUUGACUGAAACGCUGGUGAUUUAUUUAGCGACACAUGCAGCGAUAUUCCAGUCCGGCACUUGGCUCCUUCGCUGCUCUCUUGAGCAUAACAACAACUUUCCAAUUGCCAGCGCUUUGGU
....((((((.((((((..(((.....(((((((..(((...(((......)))..)))..))......)))))((((....))))................)))..)))))).)))))) (-31.60 = -32.27 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:00 2006