Locus 6399

Sequence ID	2R_DroMel_CAF1
Location	20,011,311 – 20,011,403
Length	92
Max. P	0.991443

overview

Window 2

Location	20,011,311 – 20,011,403
Length	92
Sequences	6
Columns	92
Reading direction	forward
Mean pairwise identity	92.97
Mean single sequence MFE	-31.32
Consensus MFE	-27.15
Energy contribution	-28.07
Covariance contribution	0.92
Combinations/Pair	1.10
Mean z-score	-2.70
Structure conservation index	0.87
SVM decision value	2.27
SVM RNA-class probability	0.991443
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20011311 92 + 20766785
CCAGGCAAUGUGCGUAAAUUAAGUAUACGCCGUGUUUUCGGAGCGUGCCCCUGCCGCUUGGCACUUGAUUAAGCACUUUUGCCCCAUAAAUA
...(((((.((((...((((((((....((((......).(((((.((....))))))))))))))))))..))))..)))))......... ( -29.70)
>DroSec_CAF1 27999 92 + 1
CCGGGCAAUGUGCGUAAAUUAAGUAUACGCCGUGUUUUCGGUGCGUGCCCCUGCCGCUUAGCACUUGAUUAAGCACUUUUGCCCCAUAAAUA
..((((((.((((...((((((((....((((......))))(((.((....))))).....))))))))..))))..))))))........ ( -33.20)
>DroSim_CAF1 28173 92 + 1
CCGGGCAAUGUGCGUAAAUUAAGUAUACGCCGUGUUUUCGGUGCGUGCCCCUGCCGCUUGGCACUUGAUUAAGCACUUUUGCCCCAUAAAUA
..((((((.((((...(((((((((..(((((......)))))..)))...((((....)))).))))))..))))..))))))........ ( -34.00)
>DroEre_CAF1 34093 92 + 1
CCGGGCAAUGUGCGUAAAUUAAGUAUACGCCGUGUUUUCGGUGCGUGCCCCUGCCGCUCGGCAUUUGAUUAAGCACUUCUGGCCCAUAAAUA
..((((...((((...(((((((((..(((((......)))))..)))...((((....)))).))))))..)))).....))))....... ( -33.50)
>DroYak_CAF1 33414 92 + 1
CCGGGCAAUGUGCGUAAAUUAAGUAUACGCCGUGUUUUCGGUGCGCGCCCCUGCCGCUUGGCAUUUGAUUAAGCACUUUUGCCCCAUAAAUA
..((((((.((((...((((((((...(((((......))))).........(((....)))))))))))..))))..))))))........ ( -31.50)
>DroAna_CAF1 29884 92 + 1
CAAGGCGAUGUGCGAGAAUUAAGUAUACGCCGUGUUGUCGGUGCAUGCCCCUGCCAUUUGGCGUUUGAUUAAGCACUUUUACCCCAUAAAUA
...((..(.((((...((((((((((.(((((......))))).))))....(((....)))..))))))..))))..)..))......... ( -26.00)
>consensus
CCGGGCAAUGUGCGUAAAUUAAGUAUACGCCGUGUUUUCGGUGCGUGCCCCUGCCGCUUGGCACUUGAUUAAGCACUUUUGCCCCAUAAAUA
..((((((.((((...((((((((((.(((((......))))).))))...((((....)))).))))))..))))..))))))........ (-27.15 = -28.07 +   0.92)

alignment

secondary structure

dotplot

Window 3

Location	20,011,311 – 20,011,403
Length	92
Sequences	6
Columns	92
Reading direction	reverse
Mean pairwise identity	92.97
Mean single sequence MFE	-27.12
Consensus MFE	-23.91
Energy contribution	-23.50
Covariance contribution	-0.41
Combinations/Pair	1.29
Mean z-score	-1.41
Structure conservation index	0.88
SVM decision value	0.36
SVM RNA-class probability	0.705191
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20011311 92 - 20766785
UAUUUAUGGGGCAAAAGUGCUUAAUCAAGUGCCAAGCGGCAGGGGCACGCUCCGAAAACACGGCGUAUACUUAAUUUACGCACAUUGCCUGG
........((((((..(((..........((((....))))((((....)))).....))).(((((.........)))))...)))))).. ( -27.40)
>DroSec_CAF1 27999 92 - 1
UAUUUAUGGGGCAAAAGUGCUUAAUCAAGUGCUAAGCGGCAGGGGCACGCACCGAAAACACGGCGUAUACUUAAUUUACGCACAUUGCCCGG
........((((((..((((.(((..(((((....(((((....)).))).(((......)))....)))))...))).)))).)))))).. ( -27.90)
>DroSim_CAF1 28173 92 - 1
UAUUUAUGGGGCAAAAGUGCUUAAUCAAGUGCCAAGCGGCAGGGGCACGCACCGAAAACACGGCGUAUACUUAAUUUACGCACAUUGCCCGG
........((((((..((((........(((((...(....).)))))((.(((......))).)).............)))).)))))).. ( -28.80)
>DroEre_CAF1 34093 92 - 1
UAUUUAUGGGCCAGAAGUGCUUAAUCAAAUGCCGAGCGGCAGGGGCACGCACCGAAAACACGGCGUAUACUUAAUUUACGCACAUUGCCCGG
......(((((.....((((((.......((((....)))).))))))..............(((((.........))))).....))))). ( -26.80)
>DroYak_CAF1 33414 92 - 1
UAUUUAUGGGGCAAAAGUGCUUAAUCAAAUGCCAAGCGGCAGGGGCGCGCACCGAAAACACGGCGUAUACUUAAUUUACGCACAUUGCCCGG
........((((((..((((((.......((((....)))).))))))..............(((((.........)))))...)))))).. ( -28.40)
>DroAna_CAF1 29884 92 - 1
UAUUUAUGGGGUAAAAGUGCUUAAUCAAACGCCAAAUGGCAGGGGCAUGCACCGACAACACGGCGUAUACUUAAUUCUCGCACAUCGCCUUG
.......(((((....((((..........(((....)))..(((.((((.(((......))).)))).))).......))))...))))). ( -23.40)
>consensus
UAUUUAUGGGGCAAAAGUGCUUAAUCAAAUGCCAAGCGGCAGGGGCACGCACCGAAAACACGGCGUAUACUUAAUUUACGCACAUUGCCCGG
........((((((..((((((.......((((....)))).))))))((.(((......))).))..................)))))).. (-23.91 = -23.50 +  -0.41)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:03 2006