Locus 2497

Sequence ID	X_DroMel_CAF1
Location	6,635,315 – 6,635,419
Length	104
Max. P	0.937226

overview

Window 3

Location	6,635,315 – 6,635,419
Length	104
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	93.46
Mean single sequence MFE	-40.74
Consensus MFE	-34.28
Energy contribution	-33.88
Covariance contribution	-0.40
Combinations/Pair	1.16
Mean z-score	-1.62
Structure conservation index	0.84
SVM decision value	0.96
SVM RNA-class probability	0.890420
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6635315 104 + 22224390
CUGGCACCGCUGGGAUACGGAUUCCGAUUCCGAUUCGGUUUCGGACUCGGAUGUGGCGGCAAUUGCUUGACCGUGUACGAAUAGAAAUGCCAGCGGUCGGCGAG
((.((((((((((.((......(((((.(((((.......))))).)))))(((((((((((....))).)))).)))).......)).))))))))..)).)) ( -42.20)
>DroSec_CAF1 29242 104 + 1
CUGGCACUGCUGGGAUACGGAUUCCGAUUCCGAUUCGGUUUCGGACUCGGAUGCGGCGGCAAUUGCUUGACCGUGUACGAAUAGAAAUGCCAGCGGUCGGCGAG
((.((((((((((.((.((.((.((((.(((((.......))))).)))))).))(((((((....))).))))............)).))))))))..)).)) ( -40.90)
>DroSim_CAF1 27005 104 + 1
CUGGCACUGCUGGGAUACGGAUUCCGAUUCCGAUUCGGUUUCGGACUCGGAUGCGGCGGCAAUUGCUUGACCGUGUACGAAUAGAAAUGCCAGCGGUCGGCGAG
((.((((((((((.((.((.((.((((.(((((.......))))).)))))).))(((((((....))).))))............)).))))))))..)).)) ( -40.90)
>DroEre_CAF1 22962 104 + 1
CUGGCACUGUUCAGAUACGGAUUCCGAUUCGGUUUUGGACUCGGACUCGGAUGCGGUGGCAAUUGCUUGACCGUGUACGAAUAAAAAUGCCAGCGGUCGGCCAG
((((((.(((((..((((((..((((((((((((...))).)))).))))).(((((....)))))....))))))..)))))....)))))).((....)).. ( -36.10)
>DroYak_CAF1 25216 104 + 1
CUGGCACUGCUGGGAUACGGAUUCCGAUUCGGUUUCGGACUUGGACUCGGAUGCGGUGGCAAUUGCUUGACCGUGUACGAAUAGAAAUGCCAGCGGUCGGCCAG
(((((((((((((.((.(.((.(((((.......))))).)).)..(((.((((((((((....)))..))))))).)))......)).))))))))..))))) ( -43.60)
>consensus
CUGGCACUGCUGGGAUACGGAUUCCGAUUCCGAUUCGGUUUCGGACUCGGAUGCGGCGGCAAUUGCUUGACCGUGUACGAAUAGAAAUGCCAGCGGUCGGCGAG
((.((((((((((.((.(.((..((((.......))))..)).)..(((.(..(((.(((....)))...)))..).)))......)).))))))))..)).)) (-34.28 = -33.88 +  -0.40)

alignment

secondary structure

dotplot

Window 4

Location	6,635,315 – 6,635,419
Length	104
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	93.46
Mean single sequence MFE	-33.02
Consensus MFE	-29.62
Energy contribution	-30.10
Covariance contribution	0.48
Combinations/Pair	1.10
Mean z-score	-1.50
Structure conservation index	0.90
SVM decision value	1.26
SVM RNA-class probability	0.937226
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6635315 104 - 22224390
CUCGCCGACCGCUGGCAUUUCUAUUCGUACACGGUCAAGCAAUUGCCGCCACAUCCGAGUCCGAAACCGAAUCGGAAUCGGAAUCCGUAUCCCAGCGGUGCCAG
...((..((((((((...........((...(((.(((....))))))..)).(((((.(((((.......))))).))))).........))))))))))... ( -36.90)
>DroSec_CAF1 29242 104 - 1
CUCGCCGACCGCUGGCAUUUCUAUUCGUACACGGUCAAGCAAUUGCCGCCGCAUCCGAGUCCGAAACCGAAUCGGAAUCGGAAUCCGUAUCCCAGCAGUGCCAG
...........((((((((.((....((((.(((.(((....)))))).....(((((.(((((.......))))).)))))....))))...)).)))))))) ( -34.90)
>DroSim_CAF1 27005 104 - 1
CUCGCCGACCGCUGGCAUUUCUAUUCGUACACGGUCAAGCAAUUGCCGCCGCAUCCGAGUCCGAAACCGAAUCGGAAUCGGAAUCCGUAUCCCAGCAGUGCCAG
...........((((((((.((....((((.(((.(((....)))))).....(((((.(((((.......))))).)))))....))))...)).)))))))) ( -34.90)
>DroEre_CAF1 22962 104 - 1
CUGGCCGACCGCUGGCAUUUUUAUUCGUACACGGUCAAGCAAUUGCCACCGCAUCCGAGUCCGAGUCCAAAACCGAAUCGGAAUCCGUAUCUGAACAGUGCCAG
..((....)).((((((((((((...((((.(((((((....)))..)))).....((.(((((.((.......)).))))).)).)))).)))).)))))))) ( -27.70)
>DroYak_CAF1 25216 104 - 1
CUGGCCGACCGCUGGCAUUUCUAUUCGUACACGGUCAAGCAAUUGCCACCGCAUCCGAGUCCAAGUCCGAAACCGAAUCGGAAUCCGUAUCCCAGCAGUGCCAG
(((((..((.(((((.......(((((....(((((((....)))..))))....))))).....(((((.......))))).........))))).))))))) ( -30.70)
>consensus
CUCGCCGACCGCUGGCAUUUCUAUUCGUACACGGUCAAGCAAUUGCCGCCGCAUCCGAGUCCGAAACCGAAUCGGAAUCGGAAUCCGUAUCCCAGCAGUGCCAG
...........((((((((.((....((((.(((((((....)))..))))..(((((.(((((.......))))).)))))....))))...)).)))))))) (-29.62 = -30.10 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:16 2006