Locus 6732

Sequence ID	2L_DroMel_CAF1
Location	18,816,633 – 18,816,793
Length	160
Max. P	0.904866

overview

Window 0

Location	18,816,633 – 18,816,753
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	78.22
Mean single sequence MFE	-42.00
Consensus MFE	-22.02
Energy contribution	-23.00
Covariance contribution	0.98
Combinations/Pair	1.24
Mean z-score	-2.04
Structure conservation index	0.52
SVM decision value	0.49
SVM RNA-class probability	0.758317
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18816633 120 + 22407834
AUUCGAUAUGACGUCAUACUCCUGGAACACUUCUCCAACGAUUGCAUGGCAGCGGUGGCCCACCUAUUGAAUGCACCUGUAAUCGCAUUGAGUAGCUGUGCGAUAAUGCCGUGGCACUAC
..(((.((((....))))....((((.......)))).))).(((((((((...((.((.((.(((((.(((((..........))))).))))).)).)).))..)))))).))).... ( -34.90)
>DroVir_CAF1 126871 120 + 1
CAGCGCUACGAUGUCAUCAUAUUGGAGCACUUCUCCAAUGAUUGCCUGGCCGCGGUGGCCCAUCUGCUGGAUGCCCCGGUCAUCGCCUUGAGCAGCUGUGCCAUUAUGCCCUGGCAUUAU
(((((((.(((.((((.((((((((((.....))))))))..))..)))).(((((((((((((.....))))....))))))))).)))))).))))(((((........))))).... ( -42.50)
>DroPse_CAF1 94293 120 + 1
CUGCGCUACGAUCUGAUCAUCCUGGAGCAUUUCGCCAAUGACUGCAUGACCGCAGUGGCGCAUCUGCUGAACGCACCGGUGAUCGCUCUCAGCAGCUGUGCCAUCAUGCCAUGGCACUAC
.(((.(((.(((......))).))).)))....((((.(((((((......)))))((((((.(((((((..((..........))..))))))).)))))).......))))))..... ( -43.50)
>DroGri_CAF1 110046 120 + 1
CGGCGAUAUGAUGUCAUCAUUCUGGAGCACUUCUCCAACGAUUGCUUGGCAGCUGUGGCACAUCUACUAGAUGCACCCGUCAUAGCGUUAAGUAGUUGUGCCAUUAUGCCGUGGCAUUAU
.......((((((((((((.(((((((.....)))))..)).))...((((...((((((((.(((((.(((((..........))))).))))).))))))))..)))))))))))))) ( -47.10)
>DroAna_CAF1 74474 120 + 1
AUCCGAUUCGAUGUGGUCAUUCUUGAGCACUUUUCCAACGACUGCAUGGCAGCUGUGGCCCACCUCUUGGGGGCUCCCAUGAUCGCCCUGAGUAGCUGUGCUAUAAUGCCAUGGCACUAC
...((.((.((.(((.(((....))).)))...)).))))..(((((((((..((((((.((.((((..((((.((....)).).)))..)).)).)).)))))).)))))).))).... ( -39.80)
>DroPer_CAF1 94789 120 + 1
CUGCGCUACGAUCUGAUCAUCCUGGAGCACUUUGCCAAUGACUGCAUGACCGCAGUGGCGCAUCUGCUGAAUGCACCGGUGAUCGCUCUCAGCAGCUGUGCCAUCAUGCCCUGGCACUAU
.(((.(((.(((......))).))).)))...(((((...(((((......)))))((((((.(((((((..((..........))..))))))).)))))).........))))).... ( -44.20)
>consensus
CUGCGAUACGAUGUCAUCAUCCUGGAGCACUUCUCCAACGACUGCAUGGCAGCAGUGGCCCAUCUGCUGAAUGCACCGGUGAUCGCCCUGAGCAGCUGUGCCAUAAUGCCAUGGCACUAC
......................(((((.....))))).....((((((((....(((((.((.(((((.((.((..........)).)).))))).)).)))))...))))).))).... (-22.02 = -23.00 +   0.98)

alignment

secondary structure

dotplot

Window 1

Location	18,816,673 – 18,816,793
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.61
Mean single sequence MFE	-41.11
Consensus MFE	-26.33
Energy contribution	-25.81
Covariance contribution	-0.52
Combinations/Pair	1.27
Mean z-score	-2.17
Structure conservation index	0.64
SVM decision value	1.04
SVM RNA-class probability	0.904866
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18816673 120 + 22407834
AUUGCAUGGCAGCGGUGGCCCACCUAUUGAAUGCACCUGUAAUCGCAUUGAGUAGCUGUGCGAUAAUGCCGUGGCACUACAAACGCAUGGGAAGUCCGUUCAUUAACCCCAUUAUGCCCA
..(((((((((...((.((.((.(((((.(((((..........))))).))))).)).)).))..)))))).)))........(((((((................))))...)))... ( -34.29)
>DroVir_CAF1 126911 120 + 1
AUUGCCUGGCCGCGGUGGCCCAUCUGCUGGAUGCCCCGGUCAUCGCCUUGAGCAGCUGUGCCAUUAUGCCCUGGCAUUAUAAGCGCAUGGGCACGCCCUUUAUUAAUCCCAUCAUGCCCA
..((((.((.((..(((((.((.(((((((.....))(((....)))...))))).)).)))))..)).)).))))...........((((((.....................)))))) ( -39.20)
>DroPse_CAF1 94333 120 + 1
ACUGCAUGACCGCAGUGGCGCAUCUGCUGAACGCACCGGUGAUCGCUCUCAGCAGCUGUGCCAUCAUGCCAUGGCACUACAAGCGCAUGGGCACACCCCAUAUCAACCCGAUCAUGCCCA
...((((((.(((.((((((((.(((((((..((..........))..))))))).))))))))..(((....)))......))).(((((.....)))))..........))))))... ( -45.60)
>DroGri_CAF1 110086 120 + 1
AUUGCUUGGCAGCUGUGGCACAUCUACUAGAUGCACCCGUCAUAGCGUUAAGUAGUUGUGCCAUUAUGCCGUGGCAUUAUAAACGCAUGGGAACACCAUUUAUUAACCCAAUUACGCCCA
..(((((((((...((((((((.(((((.(((((..........))))).))))).))))))))..))))).))))...........((((...............)))).......... ( -40.46)
>DroAna_CAF1 74514 120 + 1
ACUGCAUGGCAGCUGUGGCCCACCUCUUGGGGGCUCCCAUGAUCGCCCUGAGUAGCUGUGCUAUAAUGCCAUGGCACUACAAGCGGAUGGGCAGUCCGUUCAUAAACCCCAUCAUGCCCA
..(((((((((..((((((.((.((((..((((.((....)).).)))..)).)).)).)))))).)))))).)))......(((((((((................)))))).)))... ( -42.09)
>DroPer_CAF1 94829 120 + 1
ACUGCAUGACCGCAGUGGCGCAUCUGCUGAAUGCACCGGUGAUCGCUCUCAGCAGCUGUGCCAUCAUGCCCUGGCACUAUAAGCGCAUGGGCACACCCCAUAUCAACCCGAUUAUGCCCA
...((((((.((..((((((((.(((((((..((..........))..))))))).))))))))..(((((((((.......)).)).)))))...............)).))))))... ( -45.00)
>consensus
ACUGCAUGGCAGCAGUGGCCCAUCUGCUGAAUGCACCGGUGAUCGCCCUGAGCAGCUGUGCCAUAAUGCCAUGGCACUACAAGCGCAUGGGCACACCCUUUAUUAACCCCAUCAUGCCCA
...((((((..((.(((((.((.(((((.((.((..........)).)).))))).)).)))))..(((....)))........))..(((...............)))..))))))... (-26.33 = -25.81 +  -0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:40 2006