Locus 3218

Sequence ID	2L_DroMel_CAF1
Location	9,207,796 – 9,207,892
Length	96
Max. P	0.993545

overview

Window 2

Location	9,207,796 – 9,207,892
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	92.48
Mean single sequence MFE	-31.68
Consensus MFE	-28.12
Energy contribution	-27.80
Covariance contribution	-0.32
Combinations/Pair	1.07
Mean z-score	-1.27
Structure conservation index	0.89
SVM decision value	0.39
SVM RNA-class probability	0.717848
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9207796 96 + 22407834
ACCCGUUUCCCCCCACCGCUUUUCCUUUGUUUUCCCGCCUAUUUUCUAUGCGGCAAGAGAGUGUCUGGCUUUCAGGUGGGCGGCAAGUGGAAAAGG
..((((((.((((((((.................((((.((.....)).))))...((((((.....)))))).)))))).)).))))))...... ( -29.70)
>DroSec_CAF1 42959 95 + 1
ACCCGCUUCC-CCCGCCGCUUUUCCUUUGUUUUCCCGCCUAUUUUCUAUGCGGCAAGAGAGUGUCUGGCUUUCAGGUGGGCGGCAGGUGGAAAAGG
..((..((((-((.(((((((..(((........((((.((.....)).))))...((((((.....))))))))).))))))).)).))))..)) ( -35.70)
>DroSim_CAF1 44754 96 + 1
ACCCGCUUCCUCCCACCGCUUUUCCUUUGUUUUCCCGCCUAUUUUCUAUGCGGCAAGAGAGUGUCUGGCUUUCAGGUGGGCGGCAGGUGGAAAAGG
..((((((((.((((((.................((((.((.....)).))))...((((((.....)))))).)))))).)).))))))...... ( -34.90)
>DroEre_CAF1 48701 94 + 1
CCUCG--UCGUCCCUCCGCUUUUCCUUUGUUUUCCCGCCUAUUUUCUAUGCGGCAAGAGAGUGUCUGGCUUUCAGGUGGGCGGCAGGUGGAAAAGG
(((..--((...(((((((((..(((........((((.((.....)).))))...((((((.....))))))))).)))))).)))..))..))) ( -29.00)
>DroYak_CAF1 47758 87 + 1
AC---------CCCUCCGCUUUUCCUUUGUUUUCCUGCCUAUUUUCUAUGCGGCAAGAGAGUGUCUGGCUUUCAGGUGGGCGGCAGGUGGAAAAGG
.(---------((((((((((..(((.........(((((((.....))).)))).((((((.....))))))))).)))))).))).))...... ( -29.10)
>consensus
ACCCG_UUCC_CCCACCGCUUUUCCUUUGUUUUCCCGCCUAUUUUCUAUGCGGCAAGAGAGUGUCUGGCUUUCAGGUGGGCGGCAGGUGGAAAAGG
..................(((((((((((((..(((((((....((.....))...((((((.....))))))))))))).)))))).))))))). (-28.12 = -27.80 +  -0.32)

alignment

secondary structure

dotplot

Window 3

Location	9,207,796 – 9,207,892
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	92.48
Mean single sequence MFE	-31.30
Consensus MFE	-26.70
Energy contribution	-28.82
Covariance contribution	2.12
Combinations/Pair	1.15
Mean z-score	-2.17
Structure conservation index	0.85
SVM decision value	2.41
SVM RNA-class probability	0.993545
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9207796 96 - 22407834
CCUUUUCCACUUGCCGCCCACCUGAAAGCCAGACACUCUCUUGCCGCAUAGAAAAUAGGCGGGAAAACAAAGGAAAAGCGGUGGGGGGAAACGGGU
((.(((((.((..((((((..(((.....)))......(((((((............))))))).......))....))))..)).))))).)).. ( -33.20)
>DroSec_CAF1 42959 95 - 1
CCUUUUCCACCUGCCGCCCACCUGAAAGCCAGACACUCUCUUGCCGCAUAGAAAAUAGGCGGGAAAACAAAGGAAAAGCGGCGGG-GGAAGCGGGU
((.(((((.((((((((((..(((.....)))......(((((((............))))))).......))....))))))))-))))).)).. ( -37.00)
>DroSim_CAF1 44754 96 - 1
CCUUUUCCACCUGCCGCCCACCUGAAAGCCAGACACUCUCUUGCCGCAUAGAAAAUAGGCGGGAAAACAAAGGAAAAGCGGUGGGAGGAAGCGGGU
((.(((((.((..((((((..(((.....)))......(((((((............))))))).......))....))))..)).))))).)).. ( -34.60)
>DroEre_CAF1 48701 94 - 1
CCUUUUCCACCUGCCGCCCACCUGAAAGCCAGACACUCUCUUGCCGCAUAGAAAAUAGGCGGGAAAACAAAGGAAAAGCGGAGGGACGA--CGAGG
((((.((..(((.((((((..(((.....)))......(((((((............))))))).......))....)))))))...))--.)))) ( -26.80)
>DroYak_CAF1 47758 87 - 1
CCUUUUCCACCUGCCGCCCACCUGAAAGCCAGACACUCUCUUGCCGCAUAGAAAAUAGGCAGGAAAACAAAGGAAAAGCGGAGGG---------GU
......((.(((.((((((..(((.....)))......(((((((............))))))).......))....))))))))---------). ( -24.90)
>consensus
CCUUUUCCACCUGCCGCCCACCUGAAAGCCAGACACUCUCUUGCCGCAUAGAAAAUAGGCGGGAAAACAAAGGAAAAGCGGAGGG_GGAA_CGGGU
((.(((((.((((((((((..(((.....)))......(((((((............))))))).......))....)))))))).))))).)).. (-26.70 = -28.82 +   2.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:13 2006