Locus 5145

Sequence ID	2R_DroMel_CAF1
Location	16,742,163 – 16,742,263
Length	100
Max. P	0.856585

overview

Window 8

Location	16,742,163 – 16,742,263
Length	100
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	81.12
Mean single sequence MFE	-26.03
Consensus MFE	-17.02
Energy contribution	-17.05
Covariance contribution	0.03
Combinations/Pair	1.06
Mean z-score	-1.47
Structure conservation index	0.65
SVM decision value	0.05
SVM RNA-class probability	0.559188
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16742163 100 + 20766785
CGCGCGAUCCGCCCGUGCUCCCCUUUUCUUUUUCGAAUGGGGGUUCCCUCGUAAUUGCGGGCCCAGAUAAGCGCUUUAUUACCGAUUCACUGGCUUUUAU
.((((.(((.(((((((..(((((.(((......))).)))))..)..........))))))...)))..)))).......(((......)))....... ( -28.50)
>DroSec_CAF1 49957 86 + 1
CGCGCGAUCCGCCCGCGCCCCUUUAUUUUUUUUU-----G---------GGUAAUUGCGGGCCCAGAUAAGCGCUUUAUUACCGAUUCACUGGCUUUUAU
.((((.(((.(((((((.(((.............-----)---------))....)))))))...)))..)))).......(((......)))....... ( -24.72)
>DroSim_CAF1 52545 91 + 1
CGCGCGAUCCGCCCGCGCCCCUUUAUUUUUUUUUUUUUGG---------CGUAAUUGCGGGCCCAGAUAAGCGCUUUAUUACCGAUUCACUGGCUUUUAU
.((((.(((.((((((((.((.................))---------.))....))))))...)))..)))).......(((......)))....... ( -21.63)
>DroEre_CAF1 51491 92 + 1
CGCGCGAUCCGCCCGC---CCUUU--UUUUUUUGG---GGGGGAGGGCUCGUAAUUGCGGGCCCAGAUAAGCGCUUUAUUACCGAUUCACUGGCUUUUAU
.((((.(((..(((.(---((...--.......))---).))).((((((((....)))))))).)))..)))).......(((......)))....... ( -35.80)
>DroYak_CAF1 57062 91 + 1
CGCGCGAUCCGCCCGC---CCAUUAUUUUUUUUGC---GGG---GCCCCCGUAAUUGCGGGCCCAGAUAAGCGCUUUAUUACCGAUUCACUGGCUUUUAU
.((((.(((.((((((---............((((---(((---...)))))))..))))))...)))..)))).......(((......)))....... ( -27.34)
>DroAna_CAF1 68367 86 + 1
UUCGCGAUCUGCCCGC---CUUUU--UUUU---CGUUUCGGG------CCGUAAUUGCGGGCUGAGAUAAGCGCUUUAUUACCGAUUCACUGGCUUUUAU
...(((.......)))---.....--....---.(((((((.------((((....)))).)))))))....(((................)))...... ( -18.19)
>consensus
CGCGCGAUCCGCCCGC___CCUUUAUUUUUUUUCG___GGG________CGUAAUUGCGGGCCCAGAUAAGCGCUUUAUUACCGAUUCACUGGCUUUUAU
.((((.(((.((((((........................................))))))...)))..)))).......(((......)))....... (-17.02 = -17.05 +   0.03)

alignment

secondary structure

dotplot

Window 9

Location	16,742,163 – 16,742,263
Length	100
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	81.12
Mean single sequence MFE	-26.91
Consensus MFE	-19.62
Energy contribution	-19.82
Covariance contribution	0.20
Combinations/Pair	1.06
Mean z-score	-2.02
Structure conservation index	0.73
SVM decision value	0.81
SVM RNA-class probability	0.856585
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16742163 100 - 20766785
AUAAAAGCCAGUGAAUCGGUAAUAAAGCGCUUAUCUGGGCCCGCAAUUACGAGGGAACCCCCAUUCGAAAAAGAAAAGGGGAGCACGGGCGGAUCGCGCG
......(((........)))......((((..((((..(((((.........(....)((((.(((......)))..))))....))))))))).)))). ( -28.80)
>DroSec_CAF1 49957 86 - 1
AUAAAAGCCAGUGAAUCGGUAAUAAAGCGCUUAUCUGGGCCCGCAAUUACC---------C-----AAAAAAAAAUAAAGGGGCGCGGGCGGAUCGCGCG
......(((........)))......((((..((((..((((((.....((---------(-----.............)))..)))))))))).)))). ( -27.12)
>DroSim_CAF1 52545 91 - 1
AUAAAAGCCAGUGAAUCGGUAAUAAAGCGCUUAUCUGGGCCCGCAAUUACG---------CCAAAAAAAAAAAAAUAAAGGGGCGCGGGCGGAUCGCGCG
......(((........)))......((((..((((..((((((......(---------((...................))))))))))))).)))). ( -24.91)
>DroEre_CAF1 51491 92 - 1
AUAAAAGCCAGUGAAUCGGUAAUAAAGCGCUUAUCUGGGCCCGCAAUUACGAGCCCUCCCCC---CCAAAAAAA--AAAGG---GCGGGCGGAUCGCGCG
......(((........)))......((((..((((((((.((......)).))))..((((---((.......--...))---).))).)))).)))). ( -29.20)
>DroYak_CAF1 57062 91 - 1
AUAAAAGCCAGUGAAUCGGUAAUAAAGCGCUUAUCUGGGCCCGCAAUUACGGGGGC---CCC---GCAAAAAAAAUAAUGG---GCGGGCGGAUCGCGCG
......(((........)))......((((..((((((((((.(......).))))---)((---((..(........)..---)))).))))).)))). ( -31.50)
>DroAna_CAF1 68367 86 - 1
AUAAAAGCCAGUGAAUCGGUAAUAAAGCGCUUAUCUCAGCCCGCAAUUACGG------CCCGAAACG---AAAA--AAAAG---GCGGGCAGAUCGCGAA
..........((((.((.(((((...(.(((......))).)...))))).(------((((...(.---....--....)---.))))).))))))... ( -19.90)
>consensus
AUAAAAGCCAGUGAAUCGGUAAUAAAGCGCUUAUCUGGGCCCGCAAUUACG________CCC___CAAAAAAAAAUAAAGG___GCGGGCGGAUCGCGCG
......(((........)))......((((..((((..((((((........................................)))))))))).)))). (-19.62 = -19.82 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:42 2006