Locus 8666

Sequence ID	X_DroMel_CAF1
Location	21,953,581 – 21,953,692
Length	111
Max. P	0.743653

overview

Window 7

Location	21,953,581 – 21,953,692
Length	111
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	86.15
Mean single sequence MFE	-38.25
Consensus MFE	-29.79
Energy contribution	-30.60
Covariance contribution	0.81
Combinations/Pair	1.11
Mean z-score	-1.72
Structure conservation index	0.78
SVM decision value	0.46
SVM RNA-class probability	0.743653
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21953581 111 + 22224390
---------GGAAGUGGAUGGAGACGGGUGGGCAUACCGAUUUGUUUGCAGAAAAUCCAGUUAUCGAUGGGCCUGUGGGAAAGCGGCCAGGAAAAGCGGUUAGCAUUACCCGGCCACUGU
---------...(((((..(....)((((((((..((((.((((....))))...(((.(....)....((((.((......)))))).)))....))))..)).))))))..))))).. ( -35.60)
>DroSec_CAF1 12007 111 + 1
---------GGAAGUGGAUGGAGACGGGUGAGCAUACCGAUUUGUUUGCAGCAAAUCCAGUUAUCGAUGGGACUGUGGGAAAGCGGGCAGGGAAAACGGCUAGCAUUACCCGGCCACUGU
---------...(((((..(....)((((((((.(((((.(((.(((((.((...(((((((........))))).))....))..))))).))).))).)))).))))))..))))).. ( -39.00)
>DroSim_CAF1 3682 111 + 1
---------GGAAGUGGAUGGAGACGGGUGAGCAUACCGAUUUGUUUGCAGCAAAUCCAGUUAUCGAUGGGACUGUGGGAAAGCGGGCAGGGAAAACGGCUAGCAUUACCCGGCCACUGU
---------...(((((..(....)((((((((.(((((.(((.(((((.((...(((((((........))))).))....))..))))).))).))).)))).))))))..))))).. ( -39.00)
>DroEre_CAF1 3503 114 + 1
AAGUGGGAAGGAAGUGGGUGGAAAUGGGCGAGCAUACCGAUUUGUUUGCAGCAAAUCCAGUUAUCGAUGGGGCUGUGCGAUGG------GGGAAAGCGGUUAGCAUCGCCCGGCCACUGU
................(((((...(((((((((..((((.(((.(..(..(((..((((........))))....)))..)..------).)))..))))..)).))))))).))))).. ( -39.40)
>consensus
_________GGAAGUGGAUGGAGACGGGUGAGCAUACCGAUUUGUUUGCAGCAAAUCCAGUUAUCGAUGGGACUGUGGGAAAGCGGGCAGGGAAAACGGCUAGCAUUACCCGGCCACUGU
............(((((..(....)((((((((.(((((.(((.(((((......((((........)))).((((......))))))))).))).))).)))).))))))..))))).. (-29.79 = -30.60 +   0.81)

alignment

secondary structure

dotplot

Window 8

Location	21,953,581 – 21,953,692
Length	111
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	86.15
Mean single sequence MFE	-27.78
Consensus MFE	-22.04
Energy contribution	-21.73
Covariance contribution	-0.31
Combinations/Pair	1.13
Mean z-score	-1.68
Structure conservation index	0.79
SVM decision value	0.42
SVM RNA-class probability	0.727338
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21953581 111 - 22224390
ACAGUGGCCGGGUAAUGCUAACCGCUUUUCCUGGCCGCUUUCCCACAGGCCCAUCGAUAACUGGAUUUUCUGCAAACAAAUCGGUAUGCCCACCCGUCUCCAUCCACUUCC---------
..((((((((((....((.....))....))))))))))........(((..((((((...((.............)).))))))..))).....................--------- ( -29.02)
>DroSec_CAF1 12007 111 - 1
ACAGUGGCCGGGUAAUGCUAGCCGUUUUCCCUGCCCGCUUUCCCACAGUCCCAUCGAUAACUGGAUUUGCUGCAAACAAAUCGGUAUGCUCACCCGUCUCCAUCCACUUCC---------
..(((((.(((((...((..((((.(((...(((..((..(((....(((.....)))....)))...)).)))...))).))))..))..))))).......)))))...--------- ( -26.90)
>DroSim_CAF1 3682 111 - 1
ACAGUGGCCGGGUAAUGCUAGCCGUUUUCCCUGCCCGCUUUCCCACAGUCCCAUCGAUAACUGGAUUUGCUGCAAACAAAUCGGUAUGCUCACCCGUCUCCAUCCACUUCC---------
..(((((.(((((...((..((((.(((...(((..((..(((....(((.....)))....)))...)).)))...))).))))..))..))))).......)))))...--------- ( -26.90)
>DroEre_CAF1 3503 114 - 1
ACAGUGGCCGGGCGAUGCUAACCGCUUUCCC------CCAUCGCACAGCCCCAUCGAUAACUGGAUUUGCUGCAAACAAAUCGGUAUGCUCGCCCAUUUCCACCCACUUCCUUCCCACUU
...((((..((((((.((..((((.(((...------.....((((((..(((........)))..))).)))....))).))))..))))))))....))))................. ( -28.30)
>consensus
ACAGUGGCCGGGUAAUGCUAACCGCUUUCCCUGCCCGCUUUCCCACAGUCCCAUCGAUAACUGGAUUUGCUGCAAACAAAUCGGUAUGCUCACCCGUCUCCAUCCACUUCC_________
...((((.(((((...((..(((......................(((............)))((((((.......)))))))))..))..)))))...))))................. (-22.04 = -21.73 +  -0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:51 2006