Locus 2179

Sequence ID	2R_DroMel_CAF1
Location	8,064,048 – 8,064,139
Length	91
Max. P	0.769975

overview

Window 0

Location	8,064,048 – 8,064,139
Length	91
Sequences	6
Columns	91
Reading direction	forward
Mean pairwise identity	91.06
Mean single sequence MFE	-24.02
Consensus MFE	-19.72
Energy contribution	-19.97
Covariance contribution	0.25
Combinations/Pair	1.08
Mean z-score	-2.26
Structure conservation index	0.82
SVM decision value	0.53
SVM RNA-class probability	0.769975
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8064048 91 + 20766785
CAAUCUUAUCACAGACGAUCGGCGCUGAAUGCCUGGAAAUUGAUUUAUAAUUUCCAAUGACAGACCGCGCUCUUUGACACACAUCGAUAAG
....((((((......((..(((((.(..(((.(((((((((.....)))))))))..).))..).)))))..))((......)))))))) ( -19.70)
>DroSec_CAF1 29182 91 + 1
CAAUCUUAUCAGAGUCGAUCGGCGCUGAAAGCCUGGAAAUUGAUUUAUAAUUUCCAAUGGCAGACCGCGCUCUUUGACACACAUCGAUAAA
.....(((((.(((((((..(((((.(...((((((((((((.....)))))))))..)))...).)))))..))))).....))))))). ( -27.30)
>DroSim_CAF1 13096 91 + 1
CAAUCUUAUCACAGACGAUCGGCGCUGAAUGCCUGGAAAUUGAUUUAUAAUUUCCAAUGGCAGACCGCGCUCUUUGACACACAUCGAUAAA
...............(((..(((((.(..(((((((((((((.....)))))))))..))))..).)))))..)))............... ( -24.90)
>DroEre_CAF1 27446 91 + 1
CAAUCUUAUCACGGCCGAUCGGUGCUGAAUGCCUGGAAAUUGAUUUAUAAUUUCCAAUGACAGUCCGCGCUUUCUGACACACAUCGAUAAA
.....(((((......((..(((((.((.(((.(((((((((.....)))))))))..).)).)).))))).)).((......))))))). ( -18.20)
>DroYak_CAF1 27407 91 + 1
CAAUCUUAUCACGGCCGAUCGGCGCUGAAUGCCUGGAAAUUGAUUUAUAAUUUCCAAUGGCAGUCCGCGCUCUUUGACACACAUCGAUAAG
....((((((...(.(((..(((((.((.(((((((((((((.....)))))))))..)))).)).)))))..))).).......)))))) ( -29.00)
>DroAna_CAF1 28267 89 + 1
CAAUCUUAUCACCACUGAUCGGCGGCGAAUGCCUGGAAAUUGAUUUAUAAUUUCCAAUGGGA--CUCCGCUCGCUGACACACAUCGAUAAA
.....(((((.....((.(((((((((....(((((((((((.....))))))))...))).--...))).))))))))......))))). ( -25.00)
>consensus
CAAUCUUAUCACAGCCGAUCGGCGCUGAAUGCCUGGAAAUUGAUUUAUAAUUUCCAAUGGCAGACCGCGCUCUUUGACACACAUCGAUAAA
.....(((((..........(((((....(((((((((((((.....)))))))))..))))....)))))....((......))))))). (-19.72 = -19.97 +   0.25)

alignment

secondary structure

dotplot

Window 1

Location	8,064,048 – 8,064,139
Length	91
Sequences	6
Columns	91
Reading direction	reverse
Mean pairwise identity	91.06
Mean single sequence MFE	-26.00
Consensus MFE	-22.32
Energy contribution	-22.10
Covariance contribution	-0.22
Combinations/Pair	1.12
Mean z-score	-1.70
Structure conservation index	0.86
SVM decision value	0.43
SVM RNA-class probability	0.732380
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8064048 91 - 20766785
CUUAUCGAUGUGUGUCAAAGAGCGCGGUCUGUCAUUGGAAAUUAUAAAUCAAUUUCCAGGCAUUCAGCGCCGAUCGUCUGUGAUAAGAUUG
(((((((((....)))..(.((.((((((......((((((((.......))))))))(((.......))))))))))).))))))).... ( -25.40)
>DroSec_CAF1 29182 91 - 1
UUUAUCGAUGUGUGUCAAAGAGCGCGGUCUGCCAUUGGAAAUUAUAAAUCAAUUUCCAGGCUUUCAGCGCCGAUCGACUCUGAUAAGAUUG
(((((((((....)))..((((..(((((.((..(((((((((.......)))))))))((.....)))).))))).)))))))))).... ( -25.70)
>DroSim_CAF1 13096 91 - 1
UUUAUCGAUGUGUGUCAAAGAGCGCGGUCUGCCAUUGGAAAUUAUAAAUCAAUUUCCAGGCAUUCAGCGCCGAUCGUCUGUGAUAAGAUUG
.....((((.(.(((((.(((((((.(..((((..((((((((.......))))))))))))..).))))......))).)))))).)))) ( -25.70)
>DroEre_CAF1 27446 91 - 1
UUUAUCGAUGUGUGUCAGAAAGCGCGGACUGUCAUUGGAAAUUAUAAAUCAAUUUCCAGGCAUUCAGCACCGAUCGGCCGUGAUAAGAUUG
(((((((((....))).......((((.(((((.(((((((((.......)))))))))((.....))...)).))))))))))))).... ( -22.80)
>DroYak_CAF1 27407 91 - 1
CUUAUCGAUGUGUGUCAAAGAGCGCGGACUGCCAUUGGAAAUUAUAAAUCAAUUUCCAGGCAUUCAGCGCCGAUCGGCCGUGAUAAGAUUG
(((((((...((.(((...(.((((.((.((((..((((((((.......)))))))))))).)).)))))....)))))))))))).... ( -29.90)
>DroAna_CAF1 28267 89 - 1
UUUAUCGAUGUGUGUCAGCGAGCGGAG--UCCCAUUGGAAAUUAUAAAUCAAUUUCCAGGCAUUCGCCGCCGAUCAGUGGUGAUAAGAUUG
(((((((......(((.(((.((((((--((....((((((((.......))))))))))).)))))))).)))......))))))).... ( -26.50)
>consensus
UUUAUCGAUGUGUGUCAAAGAGCGCGGUCUGCCAUUGGAAAUUAUAAAUCAAUUUCCAGGCAUUCAGCGCCGAUCGGCUGUGAUAAGAUUG
(((((((((....))).....((((....((((..((((((((.......))))))))))))....))))...........)))))).... (-22.32 = -22.10 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:14 2006