Locus 5448

Sequence ID	X_DroMel_CAF1
Location	14,183,595 – 14,183,709
Length	114
Max. P	0.999806

overview

Window 4

Location	14,183,595 – 14,183,709
Length	114
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	97.72
Mean single sequence MFE	-34.50
Consensus MFE	-32.86
Energy contribution	-32.82
Covariance contribution	-0.04
Combinations/Pair	1.03
Mean z-score	-2.70
Structure conservation index	0.95
SVM decision value	4.12
SVM RNA-class probability	0.999806
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14183595 114 + 22224390
AUUAAGGUAAUUCCUUUGCCUGGAUGUGCGAGUUUGUCUAUGAACGAAAGACUCUUAAAAUGUCAUCAGAAAGGUGAAAUCAGCAGACACUUGCAAGCAUAUCCAGUGUCGCAA
...((((.....))))(((((((((((((..((.(((((.(((.(....)............(((((.....)))))..)))..)))))...))..))))))))))....))). ( -34.30)
>DroSec_CAF1 93996 114 + 1
AUUAAGGUAAUUCCUUUGCCUGGAUGUGCGAGUUUGUCUAUGGACGAAGGACUCUUAAAAUGUCAUCAGAAAGGUGAAAUCAGCAGACACUUGCAAGCAUAUCCAGUGUCGCAA
...((((.....))))((((((((((((((((((((((....))))...)))))........(((((.....))))).....((((....))))..))))))))))....))). ( -34.40)
>DroSim_CAF1 71513 114 + 1
AUUAAGGUAAUUCCUUUGCCUGGAUGUGCGAGUUUGUCUAUGGACGAAGGACUCUUAAAAUGUCAUCAGAAAGGUGAAAUCAGCAGACACUUGCAAGCAUAUCCAGUGUCGCAA
...((((.....))))((((((((((((((((((((((....))))...)))))........(((((.....))))).....((((....))))..))))))))))....))). ( -34.40)
>DroEre_CAF1 83674 113 + 1
AUUAAGGUAAUUCCUCUGCCUGGAUGUGCGAGUUUGUCUACGGACGAAAGACUCUUAAAAUGUCAUCAGAAAGGUGAAAUCCGCAG-CACUUGCAAGCAUAUCCAGUGUCGCAA
....(((.....))).((((((((((((((((((((((....))))...)))))........(((((.....))))).....((((-...))))..))))))))))....))). ( -35.00)
>DroYak_CAF1 84246 114 + 1
AUUAAGGUAAUUCCUUUGCCUGGAUGUGCGAGUUUGUCUAUGGACGAAAGACUCUUAAAAUGUCAUCAGAAAGGUGAAAUCAGCAGACACUUGCAAGCAUAUCCAGUGUCGCAA
...((((.....))))((((((((((((((((((((((....))))...)))))........(((((.....))))).....((((....))))..))))))))))....))). ( -34.40)
>consensus
AUUAAGGUAAUUCCUUUGCCUGGAUGUGCGAGUUUGUCUAUGGACGAAAGACUCUUAAAAUGUCAUCAGAAAGGUGAAAUCAGCAGACACUUGCAAGCAUAUCCAGUGUCGCAA
...((((.....))))(((((((((((((((((((.((.......)).))))))........(((((.....))))).....((((....))))..))))))))))....))). (-32.86 = -32.82 +  -0.04)

alignment

secondary structure

dotplot

Window 5

Location	14,183,595 – 14,183,709
Length	114
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	97.72
Mean single sequence MFE	-26.86
Consensus MFE	-25.06
Energy contribution	-24.94
Covariance contribution	-0.12
Combinations/Pair	1.06
Mean z-score	-1.19
Structure conservation index	0.93
SVM decision value	0.04
SVM RNA-class probability	0.554202
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14183595 114 - 22224390
UUGCGACACUGGAUAUGCUUGCAAGUGUCUGCUGAUUUCACCUUUCUGAUGACAUUUUAAGAGUCUUUCGUUCAUAGACAAACUCGCACAUCCAGGCAAAGGAAUUACCUUAAU
.(((....((((((.(((....(((((((....((.........))....)))))))...((((.(.((.......)).).))))))).)))))))))((((.....))))... ( -26.00)
>DroSec_CAF1 93996 114 - 1
UUGCGACACUGGAUAUGCUUGCAAGUGUCUGCUGAUUUCACCUUUCUGAUGACAUUUUAAGAGUCCUUCGUCCAUAGACAAACUCGCACAUCCAGGCAAAGGAAUUACCUUAAU
.(((....((((((.(((....(((((((....((.........))....)))))))...((((.....(((....)))..))))))).)))))))))((((.....))))... ( -26.30)
>DroSim_CAF1 71513 114 - 1
UUGCGACACUGGAUAUGCUUGCAAGUGUCUGCUGAUUUCACCUUUCUGAUGACAUUUUAAGAGUCCUUCGUCCAUAGACAAACUCGCACAUCCAGGCAAAGGAAUUACCUUAAU
.(((....((((((.(((....(((((((....((.........))....)))))))...((((.....(((....)))..))))))).)))))))))((((.....))))... ( -26.30)
>DroEre_CAF1 83674 113 - 1
UUGCGACACUGGAUAUGCUUGCAAGUG-CUGCGGAUUUCACCUUUCUGAUGACAUUUUAAGAGUCUUUCGUCCGUAGACAAACUCGCACAUCCAGGCAGAGGAAUUACCUUAAU
.(((....((((((.(((..(....((-((((((((.......((((............))))......)))))))).))..)..))).)))))))))((((.....))))... ( -29.42)
>DroYak_CAF1 84246 114 - 1
UUGCGACACUGGAUAUGCUUGCAAGUGUCUGCUGAUUUCACCUUUCUGAUGACAUUUUAAGAGUCUUUCGUCCAUAGACAAACUCGCACAUCCAGGCAAAGGAAUUACCUUAAU
.(((....((((((.(((....(((((((....((.........))....)))))))...((((.....(((....)))..))))))).)))))))))((((.....))))... ( -26.30)
>consensus
UUGCGACACUGGAUAUGCUUGCAAGUGUCUGCUGAUUUCACCUUUCUGAUGACAUUUUAAGAGUCUUUCGUCCAUAGACAAACUCGCACAUCCAGGCAAAGGAAUUACCUUAAU
.(((....((((((.(((....(((((((....((.........))....)))))))...((((.....(((....)))..))))))).)))))))))((((.....))))... (-25.06 = -24.94 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:08 2006