Locus 8461

Sequence ID	3L_DroMel_CAF1
Location	22,267,457 – 22,267,577
Length	120
Max. P	0.671481

overview

Window 2

Location	22,267,457 – 22,267,577
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	98.33
Mean single sequence MFE	-31.33
Consensus MFE	-30.38
Energy contribution	-30.37
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.72
Structure conservation index	0.97
SVM decision value	0.20
SVM RNA-class probability	0.632899
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22267457 120 + 23771897
UCACAUGACUAGUUAAACUUUUUGCCAUUGUAAUAGUUAUGCUUGGUUGGUUUCUCUUUCUUUCGAGACUGAAACUGAACCAAACCGAAUCCCACAAACCAAAAGUUCCUUGGGGGUGGU
((.((((((((......................)))))))).((((((((((((..((((....))))..)))))).))))))...))...((((...((((.......))))..)))). ( -29.85)
>DroSec_CAF1 25734 120 + 1
UCACAUGACUAGUUAAACUUUUUGCCAUUGUAAUAGUUAUGCUUGGUUGGUUUCUCUUUCUUUCGAGACUGAAACUGAACCAAACCGAAUCCCACUAACCAAAGGUUCCUUGGGGGUGGU
...((((((((......................)))))))).((((((((((((..((((....))))..)))))).))))))((((..(((((..((((...))))...))))).)))) ( -31.15)
>DroSim_CAF1 15974 120 + 1
UCACAUGACUAGUUAAACUUUUUGCCAUUGUAAUAGUUAUGCUUGGUUGGUUUCUCUUUCUUUCGAGACUGAAACUGAACCAAACCGAAUCCCACAAACCAAAGGUUCCUUGGGGGUGGU
...((((((((......................)))))))).((((((((((((..((((....))))..)))))).))))))((((..(((((..((((...))))...))))).)))) ( -31.15)
>DroEre_CAF1 24686 120 + 1
UCACAUGACUAGUUAAACUUUUUGCCAUUGUAAUAGUUAUGCUUGGUUGGUUUCUCUUUCUUCCGAGACUGAAACUGAACCAAACCGAAUCCCACAAACCGAAGGUUCCUUGGGGGUGGU
((.((((((((......................)))))))).((((((((((((..((((....))))..)))))).))))))...))...((((...((.(((....))).)).)))). ( -33.15)
>consensus
UCACAUGACUAGUUAAACUUUUUGCCAUUGUAAUAGUUAUGCUUGGUUGGUUUCUCUUUCUUUCGAGACUGAAACUGAACCAAACCGAAUCCCACAAACCAAAGGUUCCUUGGGGGUGGU
...((((((((......................)))))))).((((((((((((..((((....))))..)))))).))))))((((..(((((..(((.....)))...))))).)))) (-30.38 = -30.37 +  -0.00)

alignment

secondary structure

dotplot

Window 3

Location	22,267,457 – 22,267,577
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	98.33
Mean single sequence MFE	-30.79
Consensus MFE	-30.10
Energy contribution	-30.16
Covariance contribution	0.06
Combinations/Pair	1.03
Mean z-score	-1.75
Structure conservation index	0.98
SVM decision value	0.29
SVM RNA-class probability	0.671481
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22267457 120 - 23771897
ACCACCCCCAAGGAACUUUUGGUUUGUGGGAUUCGGUUUGGUUCAGUUUCAGUCUCGAAAGAAAGAGAAACCAACCAAGCAUAACUAUUACAAUGGCAAAAAGUUUAACUAGUCAUGUGA
.((((..(((((.....)))))...))))......((((((((..(((((..(.((....)).)..))))).)))))))).......(((((.((((..............))))))))) ( -29.44)
>DroSec_CAF1 25734 120 - 1
ACCACCCCCAAGGAACCUUUGGUUAGUGGGAUUCGGUUUGGUUCAGUUUCAGUCUCGAAAGAAAGAGAAACCAACCAAGCAUAACUAUUACAAUGGCAAAAAGUUUAACUAGUCAUGUGA
.((((..((((((...))))))...))))......((((((((..(((((..(.((....)).)..))))).)))))))).......(((((.((((..............))))))))) ( -31.44)
>DroSim_CAF1 15974 120 - 1
ACCACCCCCAAGGAACCUUUGGUUUGUGGGAUUCGGUUUGGUUCAGUUUCAGUCUCGAAAGAAAGAGAAACCAACCAAGCAUAACUAUUACAAUGGCAAAAAGUUUAACUAGUCAUGUGA
.((((..((((((...))))))...))))......((((((((..(((((..(.((....)).)..))))).)))))))).......(((((.((((..............))))))))) ( -31.44)
>DroEre_CAF1 24686 120 - 1
ACCACCCCCAAGGAACCUUCGGUUUGUGGGAUUCGGUUUGGUUCAGUUUCAGUCUCGGAAGAAAGAGAAACCAACCAAGCAUAACUAUUACAAUGGCAAAAAGUUUAACUAGUCAUGUGA
......((((..(((((...))))).)))).....((((((((..(((((..(.((....)).)..))))).)))))))).......(((((.((((..............))))))))) ( -30.84)
>consensus
ACCACCCCCAAGGAACCUUUGGUUUGUGGGAUUCGGUUUGGUUCAGUUUCAGUCUCGAAAGAAAGAGAAACCAACCAAGCAUAACUAUUACAAUGGCAAAAAGUUUAACUAGUCAUGUGA
.((((..((((((...))))))...))))......((((((((..(((((..(.((....)).)..))))).)))))))).......(((((.((((..............))))))))) (-30.10 = -30.16 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:15:56 2006