Locus 2673

Sequence ID	3L_DroMel_CAF1
Location	7,437,152 – 7,437,268
Length	116
Max. P	0.746210

overview

Window 4

Location	7,437,152 – 7,437,248
Length	96
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	79.96
Mean single sequence MFE	-22.85
Consensus MFE	-15.68
Energy contribution	-16.40
Covariance contribution	0.72
Combinations/Pair	1.08
Mean z-score	-1.44
Structure conservation index	0.69
SVM decision value	0.33
SVM RNA-class probability	0.690059
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7437152 96 - 23771897
UAAAAUUUAGUUGCAUAUUUUGCGGCGCCAAAUGGCAGCCACAAAAAUGAAUGAAAUCGUAAAAUUCAGACC-----------CUGCUGGA-CCGCAUCCA--CGCC--CAG---
((..((((.(((.(((.(((((.((((((....))).))).))))))))))).))))..))...........-----------..((((((-.....))))--.)).--...--- ( -21.10)
>DroVir_CAF1 101822 91 - 1
UAAAAUUUUGUUGCAUAUUUUGUGGCGUCAAAUGGCAGCCACAAAAAUGAAUGAAAUCGUAAAAUCCAGACA------------CGCCGGA-CAGC---CA--CAG---CAG---
((..((((..((.(((.((((((((((((....))).))))))))))))))..))))..))...(((.(...------------..).)))-..((---..--..)---)..--- ( -22.30)
>DroGri_CAF1 81150 91 - 1
UAAAAUUUUGUUGCAUAUUUUGUGGCGUAAAAUAGCAGCCACAAAAAUGAAUGAAAUCGUAAAAUUCAGACA------------CGCCGGA-CAGC---CA--CAG---CAG---
((..((((..((.(((.(((((((((((......)).))))))))))))))..))))..))...........------------.((.(..-....---..--).)---)..--- ( -19.50)
>DroWil_CAF1 111470 110 - 1
UAAAAUUUUGUUGCAUAUUUUGUGGCAUCAAAUGGCAGCCACAAAAAUGAAUGAAAUCGUAAAAUUCGGACAAGCAAGCGAAGCCGCUGCAGCAGCCGCAA--CGCCAGCAG---
((..((((..((.(((.(((((((((...........))))))))))))))..))))..))............((..(((..((.((((...)))).))..--)))..))..--- ( -30.70)
>DroMoj_CAF1 94938 96 - 1
UAAAAUUUUGUUGCAUAUUUUGCGGCGUCGAAUGGCAGCCACAAAAAUGAAUGAAAUCGUAAAAUGCAGACA------------CGCCGGA-CAGC---CAGCCAG---CCGGCC
........((((((((.(((((.((((((....))).))).)))))((((......))))...))))).)))------------.(((((.-..(.---...)...---))))). ( -26.80)
>DroAna_CAF1 88554 90 - 1
UAAAAUUUUGUUGCAUAUUUUGUGGCGUCGAAUGGCAGUAACAAAAAUGAAUGAAAUCGUAAAAUUUGGACC-----------GCACUGGA-CCGCAUC----------CAG---
((..((((..((.(((.((((((.(((((....))).)).)))))))))))..))))..)).....((((..-----------((......-..)).))----------)).--- ( -16.70)
>consensus
UAAAAUUUUGUUGCAUAUUUUGUGGCGUCAAAUGGCAGCCACAAAAAUGAAUGAAAUCGUAAAAUUCAGACA____________CGCCGGA_CAGC___CA__CAG___CAG___
((..((((((((.(((.((((((((((((....))).))))))))))))))))))))..))...................................................... (-15.68 = -16.40 +   0.72)

alignment

secondary structure

dotplot

Window 5

Location	7,437,176 – 7,437,268
Length	92
Sequences	6
Columns	92
Reading direction	reverse
Mean pairwise identity	84.28
Mean single sequence MFE	-20.98
Consensus MFE	-15.19
Energy contribution	-15.33
Covariance contribution	0.14
Combinations/Pair	1.08
Mean z-score	-2.68
Structure conservation index	0.72
SVM decision value	0.46
SVM RNA-class probability	0.746210
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7437176 92 - 23771897
UGAGCUCUUAUUUCUGCAAAUAAAAUUUAGUUGCAUAUUUUGCGGCGCCAAAUGGCAGCCACAAAAAUGAAUGAAAUCGUAAAAUUCAGACC
.((..((....((((((((.((.....)).)))))..(((((.((((((....))).))).)))))..))).))..)).............. ( -19.40)
>DroVir_CAF1 101841 85 - 1
GGAG-------CUCUGGAAAUAAAAUUUUGUUGCAUAUUUUGUGGCGUCAAAUGGCAGCCACAAAAAUGAAUGAAAUCGUAAAAUCCAGACA
...(-------.((((((..((..((((..((.(((.((((((((((((....))).))))))))))))))..))))..))...))))))). ( -28.90)
>DroGri_CAF1 81169 85 - 1
GGAG-------UUCUGGAAAUAAAAUUUUGUUGCAUAUUUUGUGGCGUAAAAUAGCAGCCACAAAAAUGAAUGAAAUCGUAAAAUUCAGACA
...(-------(.(((((..((..((((..((.(((.(((((((((((......)).))))))))))))))..))))..))...))))))). ( -23.40)
>DroYak_CAF1 85046 92 - 1
CGUGCUUUUAUUUCGGCAAAUAAAAUUUUGUUGCAUAUUUUGCGGCGCCAAAUGGCAGCCACAAAAAUGAAUGAAAUCGUAAAAUUCAGACC
..((((........))))..((..((((..((.(((.(((((.((((((....))).))).))))))))))..))))..))........... ( -22.00)
>DroMoj_CAF1 94962 83 - 1
GAAG-------C--UGGAAAUAAAAUUUUGUUGCAUAUUUUGCGGCGUCGAAUGGCAGCCACAAAAAUGAAUGAAAUCGUAAAAUGCAGACA
...(-------(--((.(..((..((((..((.(((.(((((.((((((....))).))).))))))))))..))))..))...).))).). ( -18.40)
>DroAna_CAF1 88572 80 - 1
CGG------------GCAAAUAAAAUUUUGUUGCAUAUUUUGUGGCGUCGAAUGGCAGUAACAAAAAUGAAUGAAAUCGUAAAAUUUGGACC
.((------------.((((((..((((..((.(((.((((((.(((((....))).)).)))))))))))..))))..))...))))..)) ( -13.80)
>consensus
GGAG_______UUCUGCAAAUAAAAUUUUGUUGCAUAUUUUGCGGCGUCAAAUGGCAGCCACAAAAAUGAAUGAAAUCGUAAAAUUCAGACA
....................((..((((((((.(((.(((((.((((((....))).))).))))))))))))))))..))........... (-15.19 = -15.33 +   0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:59 2006