Locus 512

Sequence ID	X_DroMel_CAF1
Location	1,477,650 – 1,477,792
Length	142
Max. P	0.999758

overview

Window 5

Location	1,477,650 – 1,477,768
Length	118
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	87.71
Mean single sequence MFE	-28.03
Consensus MFE	-22.88
Energy contribution	-22.44
Covariance contribution	-0.44
Combinations/Pair	1.10
Mean z-score	-2.22
Structure conservation index	0.82
SVM decision value	0.54
SVM RNA-class probability	0.775170
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1477650 118 - 22224390
CCGCUUGAAGGUGGGCGC--AAAGAGGGGGAAACCCCCUCAAUAGAUCAUCAUUUCAGUAGAUCUUUCAGCUACUAAAAAAGAAGACAUAAGAAAUAGCCCAUGCAUAUAAUAUUUUCUC
..........((((((..--...(((((((...)))))))..((..((.((.(((.(((((.........)))))..))).)).))..)).......))))))................. ( -29.10)
>DroSec_CAF1 13066 118 - 1
CCGCUUGAUGUUGGGUGC--AAAGAGGGGGAAACCCCCUCAAUAGAUCAUCAUUUCAGUAGAUCUUUCAGCUACUAAAAAAGAAGACAUAAGAAAUAGCCCAUGCAUAUAAUAUUUUCUC
.......(((((((((..--...(((((((...)))))))..((..((.((.(((.(((((.........)))))..))).)).))..)).......))))).))))............. ( -27.90)
>DroEre_CAF1 14241 115 - 1
CUCCUUAA----GGGCACAGAAAAGGGGGGAAACCCCAGCAAUAGAUCAUAAUUUCAGUGGAUCUUUCAGCUACCAA-AAAGAAGAAAUAAGAAAUAGCCCAUGCAUACAAUAUUUUCUC
........----((((.........((((....))))(((...(((((...((....)).)))))....))).....-...................))))................... ( -27.10)
>consensus
CCGCUUGA_G_UGGGCGC__AAAGAGGGGGAAACCCCCUCAAUAGAUCAUCAUUUCAGUAGAUCUUUCAGCUACUAAAAAAGAAGACAUAAGAAAUAGCCCAUGCAUAUAAUAUUUUCUC
............((((.........((((....))))..............(((((..((..(((((..............)))))..)).))))).))))................... (-22.88 = -22.44 +  -0.44)

alignment

secondary structure

dotplot

Window 6

Location	1,477,690 – 1,477,792
Length	102
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	75.14
Mean single sequence MFE	-27.50
Consensus MFE	-19.24
Energy contribution	-18.80
Covariance contribution	-0.44
Combinations/Pair	1.19
Mean z-score	-2.67
Structure conservation index	0.70
SVM decision value	4.02
SVM RNA-class probability	0.999758
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1477690 102 - 22224390
----------------GCACACACACACACACUGAAGCAACCGCUUGAAGGUGGGCGC--AAAGAGGGGGAAACCCCCUCAAUAGAUCAUCAUUUCAGUAGAUCUUUCAGCUACUAAAAA
----------------((............((((((((..(((((....)))))..))--...(((((((...))))))).............)))))).((....)).))......... ( -31.20)
>DroSec_CAF1 13106 118 - 1
UCCCCCCCCUCCCCACACACACACACACACACUGAGGAAACCGCUUGAUGUUGGGUGC--AAAGAGGGGGAAACCCCCUCAAUAGAUCAUCAUUUCAGUAGAUCUUUCAGCUACUAAAAA
....(((((((....(((...((.(((((...((.(....)))..)).))))).))).--...)))))))......................(((.(((((.........))))).))). ( -24.90)
>DroEre_CAF1 14281 115 - 1
UCCACCCCCACCAUCCACACUCACACACAAACUGAAGCAGCUCCUUAA----GGGCACAGAAAAGGGGGGAAACCCCAGCAAUAGAUCAUAAUUUCAGUGGAUCUUUCAGCUACCAA-AA
............((((((..................((.((((.....----)))).........((((....)))).))....((........)).))))))..............-.. ( -26.40)
>consensus
UCC_CCCCC_CC___CACACACACACACACACUGAAGCAACCGCUUGA_G_UGGGCGC__AAAGAGGGGGAAACCCCCUCAAUAGAUCAUCAUUUCAGUAGAUCUUUCAGCUACUAAAAA
..............................(((((((....(((((......)))))........((((....))))...............)))))))..................... (-19.24 = -18.80 +  -0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:26 2006