Locus 5999

Sequence ID	2L_DroMel_CAF1
Location	16,897,396 – 16,897,556
Length	160
Max. P	0.990984

overview

Window 9

Location	16,897,396 – 16,897,516
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.67
Mean single sequence MFE	-45.68
Consensus MFE	-39.02
Energy contribution	-40.70
Covariance contribution	1.68
Combinations/Pair	1.06
Mean z-score	-2.13
Structure conservation index	0.85
SVM decision value	2.24
SVM RNA-class probability	0.990984
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16897396 120 - 22407834
CGUGUACAGCUGGUGAAAUUGUUCCAGCCAUAUGGGUUGGUUCAAUCCAUCCGGCUGCGCACCGCCGGUGGUAAGCAGCUUUUCAAGCACAAACAGCGCAAGGUAGCCGGCUCCCUGAAC
.(((..(((((((....((((..((((((.....))))))..))))....)))))))..))).((((((........(((.....)))........(....)...))))))......... ( -47.10)
>DroSec_CAF1 10104 120 - 1
CGUGUCCAGCUGGUGAAAUUGUUCCAGCCCUAUGGAUUGGUUCAAUCCAUCCGGCUGCGCACCGCCGGGGGCAAGCAGCUUUUCAAGCACAAACAGCGCAAGGUAGCCGGCUCCCUGAAC
.((((.(((((((....((((..((((((....)).))))..))))....))))))).))))....((((((..((.(((((....((.......))..))))).))..))))))..... ( -46.40)
>DroSim_CAF1 12375 120 - 1
CGUGUCCAGCUGGUGAAAUUGUUCCAGCCCUAUGGAUUGGUUCAAUCCAUCCGGCUGCGCACCGCCGGGGGCAAGCAGCUUUUCAAGCACAAACAGCGCAAGGUAGCCGGCUCCCUGAAC
.((((.(((((((....((((..((((((....)).))))..))))....))))))).))))....((((((..((.(((((....((.......))..))))).))..))))))..... ( -46.40)
>DroEre_CAF1 12028 120 - 1
CGCGUCCAGCUAGUGAAAUUGUUCCAGCCCUACGGGUUGGUUCAAUCCAUCCGGCUGCGCACCGCCGGUGGCAAGCAGCUUUUUAAGCACAAACAGCGCAAGGGAGCCGGCUCCCUAAAC
.((((...(((......((((..(((((((...)))))))..))))(((.(((((........))))))))..))).(((.....))).......)))).((((((....)))))).... ( -47.90)
>DroYak_CAF1 9942 120 - 1
CGCGUCCAGCUGGUGAAAUUGUUCCAACCCUAUGGGUUGGUUCAAUCCAUCCGUCUUCGCACCGCCGGUGGCAAGCAGCUUUUCAAGCACAAACAGCGCAAGGUAGCCGGCUCCCUAAAC
.(((....((.((((..((((..(((((((...)))))))..)))).)))).))...)))...((((((.((.....(((.....)))........(....))).))))))......... ( -40.60)
>consensus
CGUGUCCAGCUGGUGAAAUUGUUCCAGCCCUAUGGGUUGGUUCAAUCCAUCCGGCUGCGCACCGCCGGUGGCAAGCAGCUUUUCAAGCACAAACAGCGCAAGGUAGCCGGCUCCCUGAAC
.((((.(((((((....((((..((((((.....))))))..))))....))))))).)))).((((((.((.....(((.....)))........(....))).))))))......... (-39.02 = -40.70 +   1.68)

alignment

secondary structure

dotplot

Window 0

Location	16,897,436 – 16,897,556
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.08
Mean single sequence MFE	-41.92
Consensus MFE	-34.50
Energy contribution	-36.18
Covariance contribution	1.68
Combinations/Pair	1.07
Mean z-score	-1.97
Structure conservation index	0.82
SVM decision value	1.50
SVM RNA-class probability	0.959107
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16897436 120 - 22407834
GUCCACCGUUUUCGUGGGGAAUUUGCCAAUCAACACCAAACGUGUACAGCUGGUGAAAUUGUUCCAGCCAUAUGGGUUGGUUCAAUCCAUCCGGCUGCGCACCGCCGGUGGUAAGCAGCU
..(((((((((..(((..((.........))..))).))))(((..(((((((....((((..((((((.....))))))..))))....)))))))..)))....)))))......... ( -46.10)
>DroSec_CAF1 10144 120 - 1
GUCCACCGUUUUCGUAGGUAAUCUGCCCAUCAACACCAAACGUGUCCAGCUGGUGAAAUUGUUCCAGCCCUAUGGAUUGGUUCAAUCCAUCCGGCUGCGCACCGCCGGGGGCAAGCAGCU
((((.(((.....((((.....))))...............((((.(((((((....((((..((((((....)).))))..))))....))))))).))))...)))))))........ ( -39.50)
>DroSim_CAF1 12415 120 - 1
GUCCACCGUUUUCGUAGGUAAUCUGCCCAUCAACACCAAACGUGUCCAGCUGGUGAAAUUGUUCCAGCCCUAUGGAUUGGUUCAAUCCAUCCGGCUGCGCACCGCCGGGGGCAAGCAGCU
((((.(((.....((((.....))))...............((((.(((((((....((((..((((((....)).))))..))))....))))))).))))...)))))))........ ( -39.50)
>DroEre_CAF1 12068 120 - 1
GUCCACCGUUUUCGUAGGCAAUCUGCCCAUUAACACCAAACGCGUCCAGCUAGUGAAAUUGUUCCAGCCCUACGGGUUGGUUCAAUCCAUCCGGCUGCGCACCGCCGGUGGCAAGCAGCU
(.((((((........(((.....)))..............(((..(((((.(((..((((..(((((((...)))))))..)))).)))..)))))))).....)))))))........ ( -40.70)
>DroYak_CAF1 9982 120 - 1
AUCCACCGUUUUCGUGGGCAAUCUGCCCAUAAACACCAAACGCGUCCAGCUGGUGAAAUUGUUCCAACCCUAUGGGUUGGUUCAAUCCAUCCGUCUUCGCACCGCCGGUGGCAAGCAGCU
..(((((((((..((((((.....)))))))))).......(((....((.((((..((((..(((((((...)))))))..)))).)))).))...)))......)))))......... ( -43.80)
>consensus
GUCCACCGUUUUCGUAGGCAAUCUGCCCAUCAACACCAAACGUGUCCAGCUGGUGAAAUUGUUCCAGCCCUAUGGGUUGGUUCAAUCCAUCCGGCUGCGCACCGCCGGUGGCAAGCAGCU
..((((((........(((.....)))..............((((.(((((((....((((..((((((.....))))))..))))....))))))).))))...))))))......... (-34.50 = -36.18 +   1.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:32 2006