Locus 6535

Sequence ID	2L_DroMel_CAF1
Location	18,410,457 – 18,410,601
Length	144
Max. P	0.998078

overview

Window 1

Location	18,410,457 – 18,410,567
Length	110
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	94.91
Mean single sequence MFE	-25.12
Consensus MFE	-20.98
Energy contribution	-21.30
Covariance contribution	0.32
Combinations/Pair	1.08
Mean z-score	-2.96
Structure conservation index	0.84
SVM decision value	3.00
SVM RNA-class probability	0.998078
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18410457 110 - 22407834
CUCAUUGUGUUGCGAUGCAAUUUCAAUGCAAAGCAAACAUGCAAACAGGCAACUGGCUGAAAUAUCUCAAAGCAACCAACUGAAAUCUCAAACUGCAUCUAAGCAUCUCA
.((((((.(((((..((..((((((..((...(((....)))...(((....)))))))))))....))..)))))))).)))..........(((......)))..... ( -24.50)
>DroSec_CAF1 250730 110 - 1
CUCAUUGUGUUGCGAUGCAAUUUCAAUGCAAAGCAAACAUGCAAACAGCCAACUGGCUGAAAUAUCUCAAAGCAACCAACUGAAAUCUCAAACUGCAUCUAAGCAUCUCA
.((((((.(((((..((((.......))))..(((....)))...(((((....)))))............)))))))).)))..........(((......)))..... ( -25.40)
>DroSim_CAF1 262393 110 - 1
CUCAUUGUGUUGCGAUGCAAUUUCAAUGCAAAGCAAACAUGCAAACAGCCAACUGGCUGAAAUAUCUCAAAGCAACCAACUGAAAUCUCAAACUGCAUCUAAGCAUCUCA
.((((((.(((((..((((.......))))..(((....)))...(((((....)))))............)))))))).)))..........(((......)))..... ( -25.40)
>DroEre_CAF1 249440 110 - 1
CUCAUUGUGUUGCGCUGCAAUUUGAAUGCAAAGCAAACAUGCUAACAGGCAACUGCCCGAAAUAUCUCAAAGCAACCAACUGAAAUCUCAAACUGCAUCUACGCAUCUCG
.((((((.(((((..((((.......)))).((((....))))..(((....)))................)))))))).)))..........(((......)))..... ( -21.60)
>DroYak_CAF1 262397 110 - 1
CUCCUUGUGUUGCGCUGCAAUUUCAAUGAAAAGCAAACAUGCAAACAGGCAACUGCCUGAAAUAUCUCAAAGCAGCCAACUGAAAUCUCGAACUGCAUCUACGCAUCUCA
........((((.(((((..............(((....)))...(((((....)))))............))))))))).........((..(((......)))..)). ( -28.70)
>consensus
CUCAUUGUGUUGCGAUGCAAUUUCAAUGCAAAGCAAACAUGCAAACAGGCAACUGGCUGAAAUAUCUCAAAGCAACCAACUGAAAUCUCAAACUGCAUCUAAGCAUCUCA
.((((((.(((((..((((.......))))..(((....)))...(((((....)))))............)))))))).)))..........(((......)))..... (-20.98 = -21.30 +   0.32)

alignment

secondary structure

dotplot

Window 2

Location	18,410,487 – 18,410,601
Length	114
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	86.66
Mean single sequence MFE	-30.60
Consensus MFE	-23.38
Energy contribution	-23.70
Covariance contribution	0.32
Combinations/Pair	1.08
Mean z-score	-2.91
Structure conservation index	0.76
SVM decision value	2.18
SVM RNA-class probability	0.989691
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18410487 114 - 22407834
UCCUGUGUCUGA------UGCAUCCCAAAGAUGCAGCAAUCUCAUUGUGUUGCGAUGCAAUUUCAAUGCAAAGCAAACAUGCAAACAGGCAACUGGCUGAAAUAUCUCAAAGCAACCAAC
...((.(..((.------((((((.....)))))).))..).))(((.(((((..((..((((((..((...(((....)))...(((....)))))))))))....))..)))))))). ( -29.90)
>DroSec_CAF1 250760 120 - 1
UCCUGUGUCUGAUGCUGAUGCAUGCCAAAGAUGCAGCAAUCUCAUUGUGUUGCGAUGCAAUUUCAAUGCAAAGCAAACAUGCAAACAGCCAACUGGCUGAAAUAUCUCAAAGCAACCAAC
..((((((((.((((....)))).....))))))))........(((.(((((..((((.......))))..(((....)))...(((((....)))))............)))))))). ( -33.40)
>DroSim_CAF1 262423 120 - 1
UCCUGUGUCUGAUGCUGAUGCAUCCCAAAGAUGCACCAAUCUCAUUGUGUUGCGAUGCAAUUUCAAUGCAAAGCAAACAUGCAAACAGCCAACUGGCUGAAAUAUCUCAAAGCAACCAAC
...((((((((((((....)))))....))))))).........(((.(((((..((((.......))))..(((....)))...(((((....)))))............)))))))). ( -33.30)
>DroEre_CAF1 249470 104 - 1
----------G------AAGCAUCCCAAAGAUGCACCAUGCUCAUUGUGUUGCGCUGCAAUUUGAAUGCAAAGCAAACAUGCUAACAGGCAACUGCCCGAAAUAUCUCAAAGCAACCAAC
----------.------..(((((.....)))))..........(((.(((((..((((.......)))).((((....))))..(((....)))................)))))))). ( -24.20)
>DroYak_CAF1 262427 114 - 1
UCCUGUGCCAG------AAGCAUCCCAAAGAUGCAUCAUGCUCCUUGUGUUGCGCUGCAAUUUCAAUGAAAAGCAAACAUGCAAACAGGCAACUGCCUGAAAUAUCUCAAAGCAGCCAAC
......((..(------(.(((((.....))))).))..)).......((((.(((((..............(((....)))...(((((....)))))............))))))))) ( -32.20)
>consensus
UCCUGUGUCUGA_____AUGCAUCCCAAAGAUGCACCAAUCUCAUUGUGUUGCGAUGCAAUUUCAAUGCAAAGCAAACAUGCAAACAGGCAACUGGCUGAAAUAUCUCAAAGCAACCAAC
...................(((((.....)))))..........(((.(((((..((((.......))))..(((....)))...(((((....)))))............)))))))). (-23.38 = -23.70 +   0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:38 2006