Locus 6842

Sequence ID 3L_DroMel_CAF1
Location 18,358,829 – 18,358,945
Length 116
Max. P 0.986732
window11097 window11098

overview

Window 7

Location 18,358,829 – 18,358,945
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.32
Mean single sequence MFE -42.08
Consensus MFE -25.38
Energy contribution -26.41
Covariance contribution 1.03
Combinations/Pair 1.18
Mean z-score -3.03
Structure conservation index 0.60
SVM decision value 2.05
SVM RNA-class probability 0.986732
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18358829 116 + 23771897
GCGCAA-AAUGAAAAUGU-UUUUGCAUUGGCCA--GGAUCCGGAUCCAUGAUUCUGGAUUCUGGAUUCUGGAUUCCGGAUCCCGAUCCUGAAUGCGAUUUUCCAAGGGUGCGCGCCUCCG
(((((.-...(((((...-..(((((((...((--(((((.((((((..((.((..((........))..)).)).)))))).)))))))))))))))))))......)))))....... ( -45.50)
>DroPse_CAF1 169086 106 + 1
GCGCAAAAAUGGAAAUGUAUUUUGCAUUGGCAAAAGGAUCUGUG-------UUCGGGGU-------UCUGGGAUACCGAUUCUGAUCCUGAUGCCGGAUUCCGAAGGGUGCGCGCCUCCG
(((((....(((((((((.....)))))((((..((((((.(..-------.((((..(-------(....))..))))..).))))))..))))....)))).....)))))....... ( -38.90)
>DroSec_CAF1 142893 109 + 1
GCGCAA-AAUGGAAAUGU-UUUUGCAUUGGCCA--GGAUCCGGAUCCAUGAUUCUGGAU-------UCCGGAUUCCGGAUCCCGAUCCUGAAUGCGAAUUUCCAAGGGUGCGCGCCUCCG
(((((.-..(((((((..-..(((((((...((--(((((.((((((..((.(((((..-------.))))).)).)))))).)))))))))))))))))))))....)))))....... ( -50.60)
>DroSim_CAF1 153408 109 + 1
GCGCAA-AAUGGAAAUGU-UUUUGCAUUGGCCA--GGAUCCGGAUCCAUGAUUCUGGAU-------UCCGGAUUCCGGAUCCCGAUCCUGAAUGCGAAUUUCCAAGGGUGCGCGCCUCCG
(((((.-..(((((((..-..(((((((...((--(((((.((((((..((.(((((..-------.))))).)).)))))).)))))))))))))))))))))....)))))....... ( -50.60)
>DroAna_CAF1 139390 90 + 1
GCGCAAAAAUGGAAAUGC-UUUUGCAAUGGCCA--GGAUCC---------------------------UGUAUUCCGGAUCCCGAUCCUGAAUGCGAAUUUCCAAGGGUGCGCGCCUCUG
(((((....(((((((..-..(((((..((.(.--((((((---------------------------........)))))).)..))....))))))))))))....)))))....... ( -30.70)
>DroPer_CAF1 170064 106 + 1
GCGCAAAAAUGGAAAUGUAUUUUGCAUUGGCAAAAGGAUCUGGG-------UUCUGGGU-------UCUGGGAUACCGAUUCUGAUCCUGAUGCCGGAUUCCGAAGGGUGCGCGCCUCCG
(((((....(((((((((.....)))))((((..((((((.(((-------((...(((-------........)))))))).))))))..))))....)))).....)))))....... ( -36.20)
>consensus
GCGCAA_AAUGGAAAUGU_UUUUGCAUUGGCCA__GGAUCCGGA_______UUCUGGAU_______UCUGGAUUCCGGAUCCCGAUCCUGAAUGCGAAUUUCCAAGGGUGCGCGCCUCCG
((((...((((.(((.....))).)))).((....(((((((((........((((((........)))))).)))))))))..(((((...............)))))))))))..... (-25.38 = -26.41 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 18,358,829 – 18,358,945
Length 116
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.32
Mean single sequence MFE -37.68
Consensus MFE -18.01
Energy contribution -18.98
Covariance contribution 0.97
Combinations/Pair 1.13
Mean z-score -2.98
Structure conservation index 0.48
SVM decision value 1.72
SVM RNA-class probability 0.974171
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18358829 116 - 23771897
CGGAGGCGCGCACCCUUGGAAAAUCGCAUUCAGGAUCGGGAUCCGGAAUCCAGAAUCCAGAAUCCAGAAUCAUGGAUCCGGAUCC--UGGCCAAUGCAAAA-ACAUUUUCAUU-UUGCGC
.......(((((....((((((...(((((..((.((((((((((((.((((((.((.........)).)).)))))))))))))--))))))))))....-...))))))..-.))))) ( -42.60)
>DroPse_CAF1 169086 106 - 1
CGGAGGCGCGCACCCUUCGGAAUCCGGCAUCAGGAUCAGAAUCGGUAUCCCAGA-------ACCCCGAA-------CACAGAUCCUUUUGCCAAUGCAAAAUACAUUUCCAUUUUUGCGC
((((((.(....)))))))......((((..((((((....((((.........-------...)))).-------....))))))..))))...((((((...........)))))).. ( -30.50)
>DroSec_CAF1 142893 109 - 1
CGGAGGCGCGCACCCUUGGAAAUUCGCAUUCAGGAUCGGGAUCCGGAAUCCGGA-------AUCCAGAAUCAUGGAUCCGGAUCC--UGGCCAAUGCAAAA-ACAUUUCCAUU-UUGCGC
.......(((((....(((((((..(((((..((.((((((((((((.((((((-------........)).)))))))))))))--))))))))))....-..)))))))..-.))))) ( -45.50)
>DroSim_CAF1 153408 109 - 1
CGGAGGCGCGCACCCUUGGAAAUUCGCAUUCAGGAUCGGGAUCCGGAAUCCGGA-------AUCCAGAAUCAUGGAUCCGGAUCC--UGGCCAAUGCAAAA-ACAUUUCCAUU-UUGCGC
.......(((((....(((((((..(((((..((.((((((((((((.((((((-------........)).)))))))))))))--))))))))))....-..)))))))..-.))))) ( -45.50)
>DroAna_CAF1 139390 90 - 1
CAGAGGCGCGCACCCUUGGAAAUUCGCAUUCAGGAUCGGGAUCCGGAAUACA---------------------------GGAUCC--UGGCCAUUGCAAAA-GCAUUUCCAUUUUUGCGC
.......(((((....((((((..........((.(((((((((........---------------------------))))))--)))))..(((....-)))))))))....))))) ( -33.70)
>DroPer_CAF1 170064 106 - 1
CGGAGGCGCGCACCCUUCGGAAUCCGGCAUCAGGAUCAGAAUCGGUAUCCCAGA-------ACCCAGAA-------CCCAGAUCCUUUUGCCAAUGCAAAAUACAUUUCCAUUUUUGCGC
((((((.(....)))))))......((((..((((((......(((........-------)))..(..-------..).))))))..))))...((((((...........)))))).. ( -28.30)
>consensus
CGGAGGCGCGCACCCUUGGAAAUUCGCAUUCAGGAUCGGGAUCCGGAAUCCAGA_______AUCCAGAA_______UCCGGAUCC__UGGCCAAUGCAAAA_ACAUUUCCAUU_UUGCGC
.......(((((....((((((..........((....((((((((...............................)))))))).....))..((.......))))))))....))))) (-18.01 = -18.98 +   0.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:05 2006