Locus 190

Sequence ID	2L_DroMel_CAF1
Location	573,599 – 573,759
Length	160
Max. P	0.889626

overview

Window 3

Location	573,599 – 573,719
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	80.95
Mean single sequence MFE	-44.43
Consensus MFE	-33.74
Energy contribution	-33.64
Covariance contribution	-0.10
Combinations/Pair	1.13
Mean z-score	-1.87
Structure conservation index	0.76
SVM decision value	0.76
SVM RNA-class probability	0.842848
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 573599 120 + 22407834
UUCCCGUAGUCCUUCCCGUGGCGCAGGAUUGUGGUCUCCUGAGUGUGCUCCUCCUUGGGAAGGUACACUUGGAAUCCCGGCAAGCAAAGGCCCAGCUUUUGCUUGCACAUAACGUACUUG
...((((((((((.((....).).))))))))))..(((.(((((((((..(((...))).))))))))))))......((((((((((((...)))))))))))).............. ( -44.70)
>DroPse_CAF1 13645 117 + 1
UUGCCGUAAUCCUUGCCGUGACGCAGCACCACAGUCUUG---CCGGGCUCUUCCGCGGGGAGGUAGACCAGGAAACCGGGCAAGCAGAGGCCAAGCUUCUGCUUGCAUAUCACAUACUUU
.....(((..((((.(((((....(((.((.........---..)))))....))))).))))..((((.(....).))((((((((((((...))))))))))))...))...)))... ( -44.30)
>DroPer_CAF1 13629 117 + 1
UUGCCGUAAUCCUUGCCGUGACGCAGCACCACAGUCUUG---CCGGGCUCUUCCGCGGGGAGGUAGACCAGGAAACCGGGCAAGCAGAGGCCAAGCUUCUGCUUGCAUAUCACAUACUUU
.....(((..((((.(((((....(((.((.........---..)))))....))))).))))..((((.(....).))((((((((((((...))))))))))))...))...)))... ( -44.30)
>consensus
UUGCCGUAAUCCUUGCCGUGACGCAGCACCACAGUCUUG___CCGGGCUCUUCCGCGGGGAGGUAGACCAGGAAACCGGGCAAGCAGAGGCCAAGCUUCUGCUUGCAUAUCACAUACUUU
...((((...((((.(((((....(((.((..............)))))....))))).))))...))..)).......((((((((((((...)))))))))))).............. (-33.74 = -33.64 +  -0.10)

alignment

secondary structure

dotplot

Window 4

Location	573,639 – 573,759
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	81.56
Mean single sequence MFE	-49.53
Consensus MFE	-37.15
Energy contribution	-36.93
Covariance contribution	-0.22
Combinations/Pair	1.10
Mean z-score	-2.08
Structure conservation index	0.75
SVM decision value	0.96
SVM RNA-class probability	0.889626
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 573639 120 + 22407834
GAGUGUGCUCCUCCUUGGGAAGGUACACUUGGAAUCCCGGCAAGCAAAGGCCCAGCUUUUGCUUGCACAUAACGUACUUGGCCUCCUCAACCUUUCGUUUGUUGGGCGAGGACUCUGGAU
(((((((((..(((...))).)))))))))...((((.(((((((((((((...)))))))))))).............((((((((((((.........)))))).)))).))).)))) ( -45.40)
>DroPse_CAF1 13684 118 + 1
--CCGGGCUCUUCCGCGGGGAGGUAGACCAGGAAACCGGGCAAGCAGAGGCCAAGCUUCUGCUUGCAUAUCACAUACUUUUGCUCCUCCACCUGGCGCUUGUGCGGCGAGGACAUGGGGU
--(((...(((((.(((((((((.((.((.(....).))((((((((((((...))))))))))))................))))))).))...(((....))))))))))..)))... ( -51.60)
>DroPer_CAF1 13668 118 + 1
--CCGGGCUCUUCCGCGGGGAGGUAGACCAGGAAACCGGGCAAGCAGAGGCCAAGCUUCUGCUUGCAUAUCACAUACUUUUGCUCCUCCACCUGGCGCUUGUGCGGCGAGGACAUGGGGU
--(((...(((((.(((((((((.((.((.(....).))((((((((((((...))))))))))))................))))))).))...(((....))))))))))..)))... ( -51.60)
>consensus
__CCGGGCUCUUCCGCGGGGAGGUAGACCAGGAAACCGGGCAAGCAGAGGCCAAGCUUCUGCUUGCAUAUCACAUACUUUUGCUCCUCCACCUGGCGCUUGUGCGGCGAGGACAUGGGGU
...........(((..((((((.....((.(....).))((((((((((((...))))))))))))................))))))..(((..((((.....))))))).....))). (-37.15 = -36.93 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:28:49 2006