Locus 6538

Sequence ID	2L_DroMel_CAF1
Location	18,414,766 – 18,414,865
Length	99
Max. P	0.989972

overview

Window 7

Location	18,414,766 – 18,414,865
Length	99
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	97.58
Mean single sequence MFE	-29.06
Consensus MFE	-28.30
Energy contribution	-28.14
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-1.07
Structure conservation index	0.97
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18414766 99 + 22407834
AUUUGCCCAUUGAGGCGAGAGUCUGGAGUGGACAAAGGAGGACCCUCGAUGCUGGGCAAAUAUCAACGCGUCUGUGGGUAACAAAUUGCGAUCAAUCAU
(((((((((((.((((....)))).))..........(((....))).....))))))))).....((((..(((.....)))...))))......... ( -29.30)
>DroSec_CAF1 255363 99 + 1
AUUUGCCCAUUGAGGCGCGAGUCUGGAGUGGACAAAGGAGGACCCUCGAUGCUGGGCAAAUAUCAACGCGUCUGUGGGUAACAAAUUGCGAUCAAUCAU
..((((((((..(((((((.((((.....)))).......(.(((........)))).........))))))))))))))).................. ( -30.20)
>DroSim_CAF1 267025 99 + 1
AUUUGCCCAUUGAGGCGAGAGUCUGGAGUGGACAAAGGAGGACCCUCGAUGCUGGGCAAAUAUCAACGCGUCUGUGGGUAACAAAUUGCGAUCAAUCAU
(((((((((((.((((....)))).))..........(((....))).....))))))))).....((((..(((.....)))...))))......... ( -29.30)
>DroEre_CAF1 253974 99 + 1
AUUUGCCCAUUGAGGCAAGAGUCUGGAGUGGACAAUGGAGAACCCUCGAUUCUGGGCAAAUAUCAACGCGUCUGUGGGUAACAAAUUGCGAUCAAUCAU
..((((((((.((.((..(((((..((((.((....((.....)))).))))..))).....))...)).)).)))))))).................. ( -27.10)
>DroYak_CAF1 267427 99 + 1
AUUUGCCCAUUGAGGCGAGAGUCUGGAGUGGACAAAGGAGGACCCUUGAUGCUGGGCAAAUAUCAACGCGUCUGUGGGUAACAAAUUGCGAUCAAUCAU
(((((((((((.((((....)))).))(((....((((.....))))..)))))))))))).....((((..(((.....)))...))))......... ( -29.40)
>consensus
AUUUGCCCAUUGAGGCGAGAGUCUGGAGUGGACAAAGGAGGACCCUCGAUGCUGGGCAAAUAUCAACGCGUCUGUGGGUAACAAAUUGCGAUCAAUCAU
(((((((((((.((((....)))).))..........(((....))).....))))))))).....((((..(((.....)))...))))......... (-28.30 = -28.14 +  -0.16)

alignment

secondary structure

dotplot

Window 8

Location	18,414,766 – 18,414,865
Length	99
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	97.58
Mean single sequence MFE	-26.44
Consensus MFE	-26.35
Energy contribution	-26.47
Covariance contribution	0.12
Combinations/Pair	1.07
Mean z-score	-1.66
Structure conservation index	1.00
SVM decision value	2.19
SVM RNA-class probability	0.989972
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18414766 99 - 22407834
AUGAUUGAUCGCAAUUUGUUACCCACAGACGCGUUGAUAUUUGCCCAGCAUCGAGGGUCCUCCUUUGUCCACUCCAGACUCUCGCCUCAAUGGGCAAAU
...((..(.(((..(((((.....))))).))))..))(((((((((....((((((((.................))))))))......))))))))) ( -29.13)
>DroSec_CAF1 255363 99 - 1
AUGAUUGAUCGCAAUUUGUUACCCACAGACGCGUUGAUAUUUGCCCAGCAUCGAGGGUCCUCCUUUGUCCACUCCAGACUCGCGCCUCAAUGGGCAAAU
...((..(.(((..(((((.....))))).))))..))(((((((((....((.(((((.................))))).))......))))))))) ( -24.73)
>DroSim_CAF1 267025 99 - 1
AUGAUUGAUCGCAAUUUGUUACCCACAGACGCGUUGAUAUUUGCCCAGCAUCGAGGGUCCUCCUUUGUCCACUCCAGACUCUCGCCUCAAUGGGCAAAU
...((..(.(((..(((((.....))))).))))..))(((((((((....((((((((.................))))))))......))))))))) ( -29.13)
>DroEre_CAF1 253974 99 - 1
AUGAUUGAUCGCAAUUUGUUACCCACAGACGCGUUGAUAUUUGCCCAGAAUCGAGGGUUCUCCAUUGUCCACUCCAGACUCUUGCCUCAAUGGGCAAAU
...((..(.(((..(((((.....))))).))))..))(((((((((((..((((((((.................))))))))..))..))))))))) ( -25.53)
>DroYak_CAF1 267427 99 - 1
AUGAUUGAUCGCAAUUUGUUACCCACAGACGCGUUGAUAUUUGCCCAGCAUCAAGGGUCCUCCUUUGUCCACUCCAGACUCUCGCCUCAAUGGGCAAAU
...((..(.(((..(((((.....))))).))))..))(((((((((((...(((((....)))))(((.......)))....)).....))))))))) ( -23.70)
>consensus
AUGAUUGAUCGCAAUUUGUUACCCACAGACGCGUUGAUAUUUGCCCAGCAUCGAGGGUCCUCCUUUGUCCACUCCAGACUCUCGCCUCAAUGGGCAAAU
...((..(.(((..(((((.....))))).))))..))(((((((((....((((((((.................))))))))......))))))))) (-26.35 = -26.47 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:44 2006