Locus 7980

Sequence ID	3L_DroMel_CAF1
Location	21,107,476 – 21,107,596
Length	120
Max. P	0.926578

overview

Window 8

Location	21,107,476 – 21,107,596
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.33
Mean single sequence MFE	-45.32
Consensus MFE	-42.54
Energy contribution	-42.30
Covariance contribution	-0.24
Combinations/Pair	1.08
Mean z-score	-1.41
Structure conservation index	0.94
SVM decision value	1.18
SVM RNA-class probability	0.926578
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21107476 120 + 23771897
AAGUGCUUCUUGCCCGAGACCCCUUUGGCAUUAUACCCAUGUAUGUGGGUGAGGAUGCGUCGGGAAACCUUUGGGUGGCCUCGGAGAUGAAGUGCCUGGUGGAUACCUGCUCCAAAGUGG
..(..((((...((((((.(((((...(((((.(((((((....)))))))..)))))...((....))...))).)).))))).)..))))..)((..((((.......)))).))... ( -46.30)
>DroSec_CAF1 158108 120 + 1
AAGUGCUUCUUGCCCGAGACCCCUUUGGCAUUAUACCCAUGUAUGUGGGUGAGGAUGCGUCGGGAAACCUUUGGGUGGCCUCGGAGAUGAAGUGCCUGGUGGAUACCUGCUCCAAAGUGG
..(..((((...((((((.(((((...(((((.(((((((....)))))))..)))))...((....))...))).)).))))).)..))))..)((..((((.......)))).))... ( -46.30)
>DroSim_CAF1 65748 120 + 1
AAGUGCUUCUUGCCCGAGACCCCUUUGGCAUUAUACCCAUGUAUGUGGGUGAGGAUGCGUCGGGAAACCUUUGGGUGGCCUCGGAGAUGAAGUGCCUGGUGGAUACCUGCUCCAAAGUGG
..(..((((...((((((.(((((...(((((.(((((((....)))))))..)))))...((....))...))).)).))))).)..))))..)((..((((.......)))).))... ( -46.30)
>DroEre_CAF1 80860 120 + 1
AAGUCCUUAUUGCCCGAGAUCCCUUUGGCAUUAUACCCAUGUAUGUGGGUGAGGAUGCGUCGGGAAACCUUUGGGUGGCCUCGGAGAUGAAGUGCCUGGUGGAUACCUGCUCUAAGGUGG
....(((((..(((((((..((((...(((((.(((((((....)))))))..)))))...((....))...))).)..))))).......(((((....)).)))..))..)))))... ( -42.40)
>DroYak_CAF1 52672 120 + 1
AAGUCCUUAUUGCCCGAGAUCCCUUUGGCAUUAUACCCAUGUAUGUGGGUGAGGAUGCGGCGGGAAACCUUUGGGUGGCCUCGGAGAUGAAGUGCCUGGUGGACUGCUGCUCCAAGGUGG
...........(((((((.((((..(.(((((.(((((((....)))))))..))))).).))))....))))))).((((.((((....(((.((....)))))....)))).)))).. ( -45.30)
>consensus
AAGUGCUUCUUGCCCGAGACCCCUUUGGCAUUAUACCCAUGUAUGUGGGUGAGGAUGCGUCGGGAAACCUUUGGGUGGCCUCGGAGAUGAAGUGCCUGGUGGAUACCUGCUCCAAAGUGG
..(..((((...((((((.(((((...(((((.(((((((....)))))))..)))))...((....))...))).)).))))).)..))))..)((..((((.......)))).))... (-42.54 = -42.30 +  -0.24)

alignment

secondary structure

dotplot

Window 9

Location	21,107,476 – 21,107,596
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.33
Mean single sequence MFE	-36.68
Consensus MFE	-30.54
Energy contribution	-31.54
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-1.90
Structure conservation index	0.83
SVM decision value	1.09
SVM RNA-class probability	0.913379
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21107476 120 - 23771897
CCACUUUGGAGCAGGUAUCCACCAGGCACUUCAUCUCCGAGGCCACCCAAAGGUUUCCCGACGCAUCCUCACCCACAUACAUGGGUAUAAUGCCAAAGGGGUCUCGGGCAAGAAGCACUU
((.....)).((.(((....)))..)).((((...((((((((((((....)))...((...((((....(((((......)))))...))))....)))))))))))...))))..... ( -36.40)
>DroSec_CAF1 158108 120 - 1
CCACUUUGGAGCAGGUAUCCACCAGGCACUUCAUCUCCGAGGCCACCCAAAGGUUUCCCGACGCAUCCUCACCCACAUACAUGGGUAUAAUGCCAAAGGGGUCUCGGGCAAGAAGCACUU
((.....)).((.(((....)))..)).((((...((((((((((((....)))...((...((((....(((((......)))))...))))....)))))))))))...))))..... ( -36.40)
>DroSim_CAF1 65748 120 - 1
CCACUUUGGAGCAGGUAUCCACCAGGCACUUCAUCUCCGAGGCCACCCAAAGGUUUCCCGACGCAUCCUCACCCACAUACAUGGGUAUAAUGCCAAAGGGGUCUCGGGCAAGAAGCACUU
((.....)).((.(((....)))..)).((((...((((((((((((....)))...((...((((....(((((......)))))...))))....)))))))))))...))))..... ( -36.40)
>DroEre_CAF1 80860 120 - 1
CCACCUUAGAGCAGGUAUCCACCAGGCACUUCAUCUCCGAGGCCACCCAAAGGUUUCCCGACGCAUCCUCACCCACAUACAUGGGUAUAAUGCCAAAGGGAUCUCGGGCAAUAAGGACUU
...(((((..((.(((....))).............((((((((.......))).((((...((((....(((((......)))))...))))....)))).)))))))..))))).... ( -36.60)
>DroYak_CAF1 52672 120 - 1
CCACCUUGGAGCAGCAGUCCACCAGGCACUUCAUCUCCGAGGCCACCCAAAGGUUUCCCGCCGCAUCCUCACCCACAUACAUGGGUAUAAUGCCAAAGGGAUCUCGGGCAAUAAGGACUU
((.((((((((..(.(((((....)).))).)..))))))))...(((...((..((((...((((....(((((......)))))...))))....))))..)))))......)).... ( -37.60)
>consensus
CCACUUUGGAGCAGGUAUCCACCAGGCACUUCAUCUCCGAGGCCACCCAAAGGUUUCCCGACGCAUCCUCACCCACAUACAUGGGUAUAAUGCCAAAGGGGUCUCGGGCAAGAAGCACUU
......((((.......))))..(((..((((.(.((((((((((((....)))...((...((((....(((((......)))))...))))....))))))))))).).))))..))) (-30.54 = -31.54 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:49 2006