Locus 6023

Sequence ID	3L_DroMel_CAF1
Location	16,063,358 – 16,063,464
Length	106
Max. P	0.997384

overview

Window 7

Location	16,063,358 – 16,063,464
Length	106
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	94.32
Mean single sequence MFE	-31.88
Consensus MFE	-29.24
Energy contribution	-29.32
Covariance contribution	0.08
Combinations/Pair	1.08
Mean z-score	-1.46
Structure conservation index	0.92
SVM decision value	1.31
SVM RNA-class probability	0.940004
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16063358 106 + 23771897
UGUCCCUUUGGGAUGACAAGGAUAAGAAAAAGUCGGGCGAUGAGUGCGAGCCCGAGCCGCAGGAAGUCUGCAAGACGGACGCGGAACUGGUUAAGAAGAAGGAUGA
....(((((....((((.((............((((((...........)))))).((((.....(((((.....)))))))))..)).))))....))))).... ( -30.00)
>DroSec_CAF1 3345 106 + 1
UGUCCCUUUGGGAUGACAAGGAUAAGAAUAAUUCGGGCGAUGAGUGCGAGCCCGAGCCGCAGGAAGUCUGCAAGACGGACGCGGAACUGGUCAAGAAGAAGGAUGA
....(((((....((((.((...........(((((((...........)))))))((((.....(((((.....)))))))))..)).))))....))))).... ( -32.60)
>DroSim_CAF1 3755 106 + 1
UGUCCCUUUGGGAUGACAAGGAUAAGAAUAAGUCGGGCGAUGAGUGCGAGCCCGAGCCGCAGGAAGUCUGCAAGACGGACGCGGAACUGGUCAAGAAGAAGGAUGA
....(((((....((((.((............((((((...........)))))).((((.....(((((.....)))))))))..)).))))....))))).... ( -32.20)
>DroEre_CAF1 3322 103 + 1
UGUCCCUUUGGGAUGACAAGGAUAAGA---AGUCGGGCGAUGAGUGCGAGCCUGAACCACAGGACGUCUGCAAGACGGACGCGGAACUGGUCAAGAAGAAGGACGA
.((((((((....((((.((.......---..((((((...........)))))).((.(.(..((((.....))))..)).))..)).)))).))))..)))).. ( -30.70)
>DroYak_CAF1 4290 103 + 1
UUUCCCUUUGGGAUGACAAGGAUAAGA---AGUCGGGCGAUGAGUGCGAGCCCAAACCGCAGGACGUCUGCAAGACGGACGCGGAACUGGUCAAGAAGAAGGAUGA
....(((((....((((.(((((....---.)))((((...........))))...((((.(..((((.....))))..)))))..)).))))....))))).... ( -33.90)
>consensus
UGUCCCUUUGGGAUGACAAGGAUAAGAA_AAGUCGGGCGAUGAGUGCGAGCCCGAGCCGCAGGAAGUCUGCAAGACGGACGCGGAACUGGUCAAGAAGAAGGAUGA
....(((((....((((.((............((((((...........)))))).((((.....(((((.....)))))))))..)).))))....))))).... (-29.24 = -29.32 +   0.08)

alignment

secondary structure

dotplot

Window 8

Location	16,063,358 – 16,063,464
Length	106
Sequences	5
Columns	106
Reading direction	reverse
Mean pairwise identity	94.32
Mean single sequence MFE	-27.47
Consensus MFE	-24.44
Energy contribution	-24.52
Covariance contribution	0.08
Combinations/Pair	1.08
Mean z-score	-2.12
Structure conservation index	0.89
SVM decision value	2.85
SVM RNA-class probability	0.997384
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16063358 106 - 23771897
UCAUCCUUCUUCUUAACCAGUUCCGCGUCCGUCUUGCAGACUUCCUGCGGCUCGGGCUCGCACUCAUCGCCCGACUUUUUCUUAUCCUUGUCAUCCCAAAGGGACA
...................((((((((((((..((((((.....))))))..)))))..))...........(((..............)))........))))). ( -26.14)
>DroSec_CAF1 3345 106 - 1
UCAUCCUUCUUCUUGACCAGUUCCGCGUCCGUCUUGCAGACUUCCUGCGGCUCGGGCUCGCACUCAUCGCCCGAAUUAUUCUUAUCCUUGUCAUCCCAAAGGGACA
...(((((.....((((.((..(((((...(((.....)))....))))).((((((...........))))))............)).)))).....)))))... ( -27.50)
>DroSim_CAF1 3755 106 - 1
UCAUCCUUCUUCUUGACCAGUUCCGCGUCCGUCUUGCAGACUUCCUGCGGCUCGGGCUCGCACUCAUCGCCCGACUUAUUCUUAUCCUUGUCAUCCCAAAGGGACA
...(((((.....((((.((..(((((...(((.....)))....))))).((((((...........))))))............)).)))).....)))))... ( -27.20)
>DroEre_CAF1 3322 103 - 1
UCGUCCUUCUUCUUGACCAGUUCCGCGUCCGUCUUGCAGACGUCCUGUGGUUCAGGCUCGCACUCAUCGCCCGACU---UCUUAUCCUUGUCAUCCCAAAGGGACA
..((((((.....((((.((..(((((..((((.....))))..).)))).((.(((...........))).))..---.......)).))))......)))))). ( -27.10)
>DroYak_CAF1 4290 103 - 1
UCAUCCUUCUUCUUGACCAGUUCCGCGUCCGUCUUGCAGACGUCCUGCGGUUUGGGCUCGCACUCAUCGCCCGACU---UCUUAUCCUUGUCAUCCCAAAGGGAAA
...(((((.....((((.((..(((((..((((.....))))..).)))).((((((...........))))))..---.......)).)))).....)))))... ( -29.40)
>consensus
UCAUCCUUCUUCUUGACCAGUUCCGCGUCCGUCUUGCAGACUUCCUGCGGCUCGGGCUCGCACUCAUCGCCCGACUU_UUCUUAUCCUUGUCAUCCCAAAGGGACA
...(((((.....((((.((..(((((...(((.....)))....))))).((((((...........))))))............)).)))).....)))))... (-24.44 = -24.52 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:07 2006