Locus 6336

Sequence ID	X_DroMel_CAF1
Location	15,992,335 – 15,992,449
Length	114
Max. P	0.926012

overview

Window 5

Location	15,992,335 – 15,992,449
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.94
Mean single sequence MFE	-43.40
Consensus MFE	-41.60
Energy contribution	-41.44
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-1.35
Structure conservation index	0.96
SVM decision value	1.17
SVM RNA-class probability	0.926012
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15992335 114 + 22224390
UUGCGUCGCCAAUGCGGAACGGACCGAGGGCCGAGUCGAAGUCGAA------GUCAAAGUCGGGAAUCGCAAUUGGAGGGCCGAUCAGCGGGCCAGAUUGGCCCAAACCACACGACACAC
.((.(((((((((((((..(.(((....(((....(((....))).------)))...))).)...)))).))))).(((((((((.........)))))))))........)))).)). ( -41.70)
>DroSec_CAF1 60229 114 + 1
UUGCGUCGCCAAUGCGGAACGGACCGAGGGCCGAGUCGAAGUCGAA------GUCAAAGUCGGGAAUCGCAAUUGGAGGGCCGAUCAGCGGGCCAGAUUGGCCCAAACCACACGACACAC
.((.(((((((((((((..(.(((....(((....(((....))).------)))...))).)...)))).))))).(((((((((.........)))))))))........)))).)). ( -41.70)
>DroSim_CAF1 51285 114 + 1
UUGCGUCGCCAAUGCGGAACGGACCGAGGGCCGAGUCGAAGUCGAA------GUCAAAGUCGGGAAUCGCAAUUGGAGGGCCGAUCAGCGGGCCAGAUUGGCCCAAACCACACGACACAC
.((.(((((((((((((..(.(((....(((....(((....))).------)))...))).)...)))).))))).(((((((((.........)))))))))........)))).)). ( -41.70)
>DroEre_CAF1 58953 120 + 1
UUGCGUCGCCAAUGCGGAACGGACCGAGGGCCGAGUCGAAGUCGAAGUCGAAGUCAAAGUCGGGAAUCGCAAUUGGAGGGCCGAUCAGCGGGCCAGAUUGGCCCAAACCACACGACACAC
.((.(((((((((((((..(.(((....((((((.(((....)))..)))..)))...))).)...)))).))))).(((((((((.........)))))))))........)))).)). ( -44.30)
>DroYak_CAF1 43347 120 + 1
UUGCGUCGCCAAUGCGGAACGGACCGAGGGCCGAGUCGAAGUCGAAGUCGAAGCCAGAGUCGGGAAUCGCAAUUGGAGGGCCGAUCAGCAGGCCAGAUUGGCCCAAACCACACGACACAC
.((.(((((((((((((..(.((((...((((((.(((....)))..)))..))).).))).)...)))).))))).(((((((((.........)))))))))........)))).)). ( -47.60)
>consensus
UUGCGUCGCCAAUGCGGAACGGACCGAGGGCCGAGUCGAAGUCGAA______GUCAAAGUCGGGAAUCGCAAUUGGAGGGCCGAUCAGCGGGCCAGAUUGGCCCAAACCACACGACACAC
.((.(((((((((((((..(.(((....(((....(((....))).......)))...))).)...)))).))))).(((((((((.........)))))))))........)))).)). (-41.60 = -41.44 +  -0.16)

alignment

secondary structure

dotplot

Window 6

Location	15,992,335 – 15,992,449
Length	114
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.94
Mean single sequence MFE	-43.02
Consensus MFE	-41.42
Energy contribution	-41.30
Covariance contribution	-0.12
Combinations/Pair	1.05
Mean z-score	-1.09
Structure conservation index	0.96
SVM decision value	0.19
SVM RNA-class probability	0.624062
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15992335 114 - 22224390
GUGUGUCGUGUGGUUUGGGCCAAUCUGGCCCGCUGAUCGGCCCUCCAAUUGCGAUUCCCGACUUUGAC------UUCGACUUCGACUCGGCCCUCGGUCCGUUCCGCAUUGGCGACGCAA
.((((((((((((..((((((.....(((((((.(((.((....)).)))))).....(((..(((..------..)))..)))....))))...))))))..))))....)))))))). ( -41.80)
>DroSec_CAF1 60229 114 - 1
GUGUGUCGUGUGGUUUGGGCCAAUCUGGCCCGCUGAUCGGCCCUCCAAUUGCGAUUCCCGACUUUGAC------UUCGACUUCGACUCGGCCCUCGGUCCGUUCCGCAUUGGCGACGCAA
.((((((((((((..((((((.....(((((((.(((.((....)).)))))).....(((..(((..------..)))..)))....))))...))))))..))))....)))))))). ( -41.80)
>DroSim_CAF1 51285 114 - 1
GUGUGUCGUGUGGUUUGGGCCAAUCUGGCCCGCUGAUCGGCCCUCCAAUUGCGAUUCCCGACUUUGAC------UUCGACUUCGACUCGGCCCUCGGUCCGUUCCGCAUUGGCGACGCAA
.((((((((((((..((((((.....(((((((.(((.((....)).)))))).....(((..(((..------..)))..)))....))))...))))))..))))....)))))))). ( -41.80)
>DroEre_CAF1 58953 120 - 1
GUGUGUCGUGUGGUUUGGGCCAAUCUGGCCCGCUGAUCGGCCCUCCAAUUGCGAUUCCCGACUUUGACUUCGACUUCGACUUCGACUCGGCCCUCGGUCCGUUCCGCAUUGGCGACGCAA
.((((((((((((..((((((.....((((........))))..........((...((((..((((..(((....)))..)))).))))...))))))))..))))....)))))))). ( -44.90)
>DroYak_CAF1 43347 120 - 1
GUGUGUCGUGUGGUUUGGGCCAAUCUGGCCUGCUGAUCGGCCCUCCAAUUGCGAUUCCCGACUCUGGCUUCGACUUCGACUUCGACUCGGCCCUCGGUCCGUUCCGCAUUGGCGACGCAA
.((((((((((((..((((((.....((((........))))..........((...((((.((.((..(((....)))..)))).))))...))))))))..))))....)))))))). ( -44.80)
>consensus
GUGUGUCGUGUGGUUUGGGCCAAUCUGGCCCGCUGAUCGGCCCUCCAAUUGCGAUUCCCGACUUUGAC______UUCGACUUCGACUCGGCCCUCGGUCCGUUCCGCAUUGGCGACGCAA
.((((((((((((..((((((.....(((((((.(((.((....)).)))))).....(((..((((........))))..)))....))))...))))))..))))....)))))))). (-41.42 = -41.30 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:02 2006