Locus 7795

Sequence ID	2L_DroMel_CAF1
Location	22,004,059 – 22,004,209
Length	150
Max. P	0.665085

overview

Window 5

Location	22,004,059 – 22,004,169
Length	110
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	90.36
Mean single sequence MFE	-33.54
Consensus MFE	-26.80
Energy contribution	-27.00
Covariance contribution	0.20
Combinations/Pair	1.15
Mean z-score	-1.51
Structure conservation index	0.80
SVM decision value	0.28
SVM RNA-class probability	0.665085
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 22004059 110 - 22407834
UUCUACUGGCCUCAACCAGUACUUGCCUGGCAAGCUACCCUUGAGGAGAGCUAUGCGAUCUAGGGUUUCCUGGCUGGGCGGUUUUUUUCCUCUGGCUCUCUCCUCCAUAA
...((((((......))))))(((((...)))))........((((((((..........((((....))))((..((.((.......))))..)).))))))))..... ( -33.90)
>DroSec_CAF1 47286 110 - 1
UUCUACUGGCCUUAACCAGUACUUGCCUGGCAAGCUACCCUUGAGGAGAGCUAUGCGAUCUAGGGUUUCCUGGCUGGGCGGUUUUUUUCCUCUGGCUCUCUCCUCCAUAA
...((((((......))))))(((((...)))))........((((((((..........((((....))))((..((.((.......))))..)).))))))))..... ( -33.90)
>DroSim_CAF1 48476 110 - 1
UUCCACUGGCCUUAACCAGUACUUGCCUGGCAAGCUACCCUUGAGGAGAGCUAUGCGAUCUAGGGUUUCCUGGCUGGGCGGUUUUUUUCCUCUGGCUCUCUCCUCCAUAA
....(((((......))))).(((((...)))))........((((((((..........((((....))))((..((.((.......))))..)).))))))))..... ( -33.00)
>DroEre_CAF1 53604 110 - 1
UUCCACUGGCUUCAGCCAAUACUUGCUUGGCAAGCUACCCUUGAGGAGAGCUAUGCGUUCUUGGGUUUCCUGGUUGGGCGGUGGUUUUCCUCUGGCUCUCUCCUGCAUGA
......((((....))))...(.(((..((..(((((.....((((((((((((.((((((..((...))..)..))))))))))))))))))))))....)).))).). ( -35.90)
>DroYak_CAF1 38296 110 - 1
UUCCACUGGCUUCAGCCAAUACUUGCUCGGCAAGCUACCCCUGAGGAAUACUAUCCGAUCUUGGGUUUCCUGGCUGGGCGGUUUCUUUCCUUUGGCUCUUUCUUCCAUAA
......(((....((((((.....(((((((.((..((((..(((((......)))..))..))))...)).)))))))((.......)).)))))).......)))... ( -31.00)
>consensus
UUCCACUGGCCUCAACCAGUACUUGCCUGGCAAGCUACCCUUGAGGAGAGCUAUGCGAUCUAGGGUUUCCUGGCUGGGCGGUUUUUUUCCUCUGGCUCUCUCCUCCAUAA
....(((((......))))).(((((...)))))........((((((((............((....)).(((..((.((.......))))..)))))))))))..... (-26.80 = -27.00 +   0.20)

alignment

secondary structure

dotplot

Window 6

Location	22,004,089 – 22,004,209
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.33
Mean single sequence MFE	-41.04
Consensus MFE	-34.32
Energy contribution	-34.12
Covariance contribution	-0.20
Combinations/Pair	1.18
Mean z-score	-1.29
Structure conservation index	0.84
SVM decision value	0.03
SVM RNA-class probability	0.547720
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 22004089 120 + 22407834
CGCCCAGCCAGGAAACCCUAGAUCGCAUAGCUCUCCUCAAGGGUAGCUUGCCAGGCAAGUACUGGUUGAGGCCAGUAGAAGGCUAUCCAGAAACAUUGGCUGAGUUGGAGGCGAGCAGUC
.((((....((((....(((.......)))...))))...)))).(((((((.(((...(((((((....)))))))....))).(((((...((.....))..)))))))))))).... ( -39.40)
>DroSec_CAF1 47316 120 + 1
CGCCCAGCCAGGAAACCCUAGAUCGCAUAGCUCUCCUCAAGGGUAGCUUGCCAGGCAAGUACUGGUUAAGGCCAGUAGAAGGCUAUCCAGAAACUUUGGCUGAGUUGGAGGCAAGCAGUC
.((((....((((....(((.......)))...))))...)))).(((((((.(((...(((((((....)))))))....))).((((...((((.....))))))))))))))).... ( -40.80)
>DroSim_CAF1 48506 120 + 1
CGCCCAGCCAGGAAACCCUAGAUCGCAUAGCUCUCCUCAAGGGUAGCUUGCCAGGCAAGUACUGGUUAAGGCCAGUGGAAGGCUAUCCAGAAACUUUGGCUGAGUUGGAGGCAAGCAGUC
.((((....((((....(((.......)))...))))...)))).(((((((.(((...(((((((....)))))))....))).((((...((((.....))))))))))))))).... ( -40.50)
>DroEre_CAF1 53634 120 + 1
CGCCCAACCAGGAAACCCAAGAACGCAUAGCUCUCCUCAAGGGUAGCUUGCCAAGCAAGUAUUGGCUGAAGCCAGUGGAAGACUAUCCAGAAACCUUGGCUGACUUGGAGGCCAGCAGUC
.(((......(....)(((((.......((((..((....))..)))).((((((.....((((((....))))))(((......)))......))))))...))))).)))........ ( -37.20)
>DroYak_CAF1 38326 120 + 1
CGCCCAGCCAGGAAACCCAAGAUCGGAUAGUAUUCCUCAGGGGUAGCUUGCCGAGCAAGUAUUGGCUGAAGCCAGUGGAAGACUAUCCAGAAACCCUGGCUGAGUUGGAGGCCAGCAGUC
....((((((((...(....)...(((((((.((((.........((((((...))))))((((((....)))))))))).)))))))......)))))))).(((((...))))).... ( -47.30)
>consensus
CGCCCAGCCAGGAAACCCUAGAUCGCAUAGCUCUCCUCAAGGGUAGCUUGCCAGGCAAGUACUGGUUGAGGCCAGUGGAAGGCUAUCCAGAAACCUUGGCUGAGUUGGAGGCAAGCAGUC
.((((....((((....(((.......)))...))))...)))).(((((((.......(((((((....)))))))...((((..((((.....))))...))))...))))))).... (-34.32 = -34.12 +  -0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:03 2006