Locus 10037

Sequence ID	3R_DroMel_CAF1
Location	26,886,571 – 26,886,753
Length	182
Max. P	0.981894

overview

Window 6

Location	26,886,571 – 26,886,661
Length	90
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	76.11
Mean single sequence MFE	-31.40
Consensus MFE	-20.11
Energy contribution	-20.08
Covariance contribution	-0.03
Combinations/Pair	1.28
Mean z-score	-2.29
Structure conservation index	0.64
SVM decision value	1.90
SVM RNA-class probability	0.981894
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26886571 90 - 27905053
------------------UCGUCUUUGUGUUGGUGUGAAAAUGCUGAAGCAGGAGGGAUAGCAACGUGCUCGCGGUAGAAACCGUGCGAGUGCGGGCGGGACGACUAG
------------------((((((((((.(..((((....))))..).))))........((..((..((((((((....)))..)))))..)).)).)))))).... ( -34.10)
>DroVir_CAF1 136656 108 - 1
AUACGUAUAGACUUGUUGGCAUGCUUGUGUUGGUGUGAAAACGCUGAAACAGUCAGGCUAGCAACGUGCUCGCUGUAGAGCCAACAAUAGUGCAAGCGAGACAACCCU
.(((((.......(((((((.((.((((.(..((((....))))..).)))).)).))))))))))))((((((.....((........))...))))))........ ( -33.31)
>DroSec_CAF1 94809 90 - 1
------------------UUUUCUUUGUGUUGGUGUGAAAAUGCUGAAGCAGGAGGGAUAGCAACGUGCUCGCGGUAGAAACAGUGUGAGUGCGGGCGGGACGACUAG
------------------..((((((.(((((((((....)))))..)))).))))))..((..((..((((((.(......).))))))..)).))........... ( -27.90)
>DroSim_CAF1 98482 90 - 1
------------------UCGUCUUUGUGUUGGUGUGAAAAUGCUGAAGCAGGAGGGAUAGCAACGUGCUCGCGGUAAAAACCGUGUGAGUGCGGGCGGGACGACUAG
------------------((((((((((.(..((((....))))..).))))........((..((..((((((((....)))))..)))..)).)).)))))).... ( -32.70)
>DroWil_CAF1 22409 90 - 1
------------------UUGCAGUUGUAGUGGUGUGAAAACGCUGAAACAGUCUGGCUAGCAACGUGCUGCCUGUAUAAACAGCUCAAGAGCAAGCGAGACAUCUAU
------------------.......(((..((((((....))))))..)))((((.(((.((...(.((((..........)))).)....)).))).))))...... ( -25.70)
>DroYak_CAF1 109542 90 - 1
------------------UCGUCUUUGUGUUGGUGUGAAAAUGCUGAAGCAGGAGGGAUAGCAACGUGCUCGCGGUAGAAACCGCGUGAGUGCGGGCGAGACGACUAG
------------------((((((((((.(..((((....))))..).))).........((..((..((((((((....)))))..)))..)).))))))))).... ( -34.70)
>consensus
__________________UCGUCUUUGUGUUGGUGUGAAAAUGCUGAAGCAGGAGGGAUAGCAACGUGCUCGCGGUAGAAACAGCGUGAGUGCGGGCGAGACGACUAG
.....................(((((((.(((((((....))))))).)))).)))....((...(..((((((((....)))))..)))..)..))........... (-20.11 = -20.08 +  -0.03)

alignment

secondary structure

dotplot

Window 7

Location	26,886,661 – 26,886,753
Length	92
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	90.32
Mean single sequence MFE	-31.74
Consensus MFE	-25.30
Energy contribution	-27.90
Covariance contribution	2.60
Combinations/Pair	1.00
Mean z-score	-2.06
Structure conservation index	0.80
SVM decision value	1.32
SVM RNA-class probability	0.941839
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26886661 92 - 27905053
GAAAAAGCGGCGGUUACCACGCGCAGGAAAACUCGAAUUUCCCAACAGCAUUUCAGUG-CUCAUUGAGAGUGCGAGUGUGUGAGUGAGUGCCC
........((((.(((((((((((.(((((.......))))).....((((((((((.-...))))))).)))..))))))).)))).)))). ( -34.60)
>DroSec_CAF1 94899 76 - 1
GGAAAAGCGGCGGUUACCACGCGCAGGAAAACUCGAAUUUCCCAGCAGCAUUUCAGUGUCUCAUUGAGA--------------GUGAGUG---
.((((.((.(((.......)))((.(((((.......)))))..)).)).)))).....(((((.....--------------)))))..--- ( -18.40)
>DroSim_CAF1 98572 93 - 1
GGAAAAGCGGCGGUUACCACGCGCAGGAAAACUCGAAUUUCCCAGCAGCAUUUCAGUGUCUCAUUGAGCGUGCGAGUGUGUGAGUGAGUGCCC
........((((.(((((((((((.(((((.......))))).....(((((((((((...))))))).))))..))))))).)))).)))). ( -34.90)
>DroEre_CAF1 103479 93 - 1
GGAAAAGCGGCGGUUACCACGCGCAGGAAAACUCGAAUUUCCCAGCAGCAUUUCAGUGUCUCAUUGAGAGUGCGAGUGUGUGAGUGAGUGCCC
........((((.(((((((((((.(((((.......))))).....(((((((((((...)))))))).)))..))))))).)))).)))). ( -35.40)
>DroYak_CAF1 109632 93 - 1
GGAAAAACGGCGGUUACCACGCGCAGGAAAACUCGAAUUUCCCAACAGCAUUUCAGUGUCUCAUUGAGAGUGCGAGUGUGUGAGUGAGUGCCC
........((((.(((((((((((.(((((.......))))).....(((((((((((...)))))))).)))..))))))).)))).)))). ( -35.40)
>consensus
GGAAAAGCGGCGGUUACCACGCGCAGGAAAACUCGAAUUUCCCAGCAGCAUUUCAGUGUCUCAUUGAGAGUGCGAGUGUGUGAGUGAGUGCCC
........((((.(((((((((((.(((((.......))))).....(((((((((((...)))))))).)))..))))))).)))).)))). (-25.30 = -27.90 +   2.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:47:27 2006