Locus 4651

Sequence ID	2L_DroMel_CAF1
Location	13,330,650 – 13,330,744
Length	94
Max. P	0.858675

overview

Window 8

Location	13,330,650 – 13,330,744
Length	94
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	80.90
Mean single sequence MFE	-31.47
Consensus MFE	-20.22
Energy contribution	-20.22
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.42
Structure conservation index	0.64
SVM decision value	-0.04
SVM RNA-class probability	0.514525
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13330650 94 + 22407834
UUUGAGGCAGCCAAUGUCAGAGAACGCCAUUCGCUGAUUGGCUGCGCCCGCUGCAUGCUGCAAUCGGAAUUGUUUUUCGCCUGGCCUGGCUU---GG
...((((((((((..(((((.(((.....))).))))))))))))..(((.(((.....)))..)))........)))(((......)))..---.. ( -31.40)
>DroPse_CAF1 56841 92 + 1
UUUGUGGCAGCCAAUGUCAGAGAACGCCACUCGCUGAUUGGCUGC--CUGCAGCAUGCUGCAGGACCAAUUGUUGUU-GCC--ACUUCGCUUCCCGU
...(((((((((((((((((.((.......)).)))))(((...(--((((((....))))))).)))))))..)))-)))--))............ ( -35.70)
>DroSec_CAF1 43252 94 + 1
UUUGAGGCAGCCAAUGUCAGAGAACGCCACUCGCUGAUUGGCUGCGCCCGCUGCAUGCAGCAAUCGGAAUUGUUUUUUGCCUGGCCUGGCUU---GG
(((((.(((((((..(((((.((.......)).))))))))))))....((((....))))..)))))..........(((......)))..---.. ( -32.20)
>DroEre_CAF1 44139 89 + 1
UUUGAGGCAGCCAAUGUCAGAGAACGCCACUCGCUGAUUGGCUGCGCCCGCUGCAUGCUGCAAUCGGAAUUGUUUCUCGCCUGGCCU--------GG
...((((((((((..(((((.((.......)).))))))))))))..(((.(((.....)))..)))........))).((......--------)) ( -28.30)
>DroAna_CAF1 44267 77 + 1
UUUGUGGCAGCCAAUGUCAGAGAACGCCACUCGCUGAUUGGCUGC-CGCGCUGCAUGCUGCAAGCCCAAUUGUUUUU-------------------G
...((((((((((..(((((.((.......)).))))))))))))-)))(((((.....)).)))............-------------------. ( -31.10)
>DroPer_CAF1 56338 92 + 1
UUUGUGGCAGCCAAUGUCAGAGAACGCCACUCGCUGAUUGGCUGC--CUGCAGCAUGCUGCAUGACCAAUUGUUGUU-GCC--ACUUCGCUUCCCGU
...((((((((((((((((......((((.((...)).))))...--.(((((....)))))))))..))))..)))-)))--))............ ( -30.10)
>consensus
UUUGAGGCAGCCAAUGUCAGAGAACGCCACUCGCUGAUUGGCUGC_CCCGCUGCAUGCUGCAAGCCCAAUUGUUUUU_GCC__GCCU_GCUU___GG
......(((((((..(((((.((.......)).))))))))))))....((.(....).)).................................... (-20.22 = -20.22 +  -0.00)

alignment

secondary structure

dotplot

Window 9

Location	13,330,650 – 13,330,744
Length	94
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	80.90
Mean single sequence MFE	-32.95
Consensus MFE	-20.91
Energy contribution	-20.80
Covariance contribution	-0.11
Combinations/Pair	1.15
Mean z-score	-2.32
Structure conservation index	0.63
SVM decision value	0.82
SVM RNA-class probability	0.858675
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13330650 94 - 22407834
CC---AAGCCAGGCCAGGCGAAAAACAAUUCCGAUUGCAGCAUGCAGCGGGCGCAGCCAAUCAGCGAAUGGCGUUCUCUGACAUUGGCUGCCUCAAA
..---..(((......)))((........((((.((((.....)))))))).((((((((((((.((((...)))).))))..)))))))).))... ( -33.00)
>DroPse_CAF1 56841 92 - 1
ACGGGAAGCGAAGU--GGC-AACAACAAUUGGUCCUGCAGCAUGCUGCAG--GCAGCCAAUCAGCGAGUGGCGUUCUCUGACAUUGGCUGCCACAAA
..((((..(((..(--(..-..))....))).))))((((....)))).(--((((((((((((.(((.....))).))))..)))))))))..... ( -36.70)
>DroSec_CAF1 43252 94 - 1
CC---AAGCCAGGCCAGGCAAAAAACAAUUCCGAUUGCUGCAUGCAGCGGGCGCAGCCAAUCAGCGAGUGGCGUUCUCUGACAUUGGCUGCCUCAAA
..---..(((......))).................((((....))))(((.((((((((((((.(((.....))).))))..)))))))))))... ( -33.80)
>DroEre_CAF1 44139 89 - 1
CC--------AGGCCAGGCGAGAAACAAUUCCGAUUGCAGCAUGCAGCGGGCGCAGCCAAUCAGCGAGUGGCGUUCUCUGACAUUGGCUGCCUCAAA
..--------.........(((.......((((.((((.....)))))))).((((((((((((.(((.....))).))))..)))))))))))... ( -30.70)
>DroAna_CAF1 44267 77 - 1
C-------------------AAAAACAAUUGGGCUUGCAGCAUGCAGCGCG-GCAGCCAAUCAGCGAGUGGCGUUCUCUGACAUUGGCUGCCACAAA
.-------------------..........(.(((.((.....))))).)(-((((((((((((.(((.....))).))))..)))))))))..... ( -30.00)
>DroPer_CAF1 56338 92 - 1
ACGGGAAGCGAAGU--GGC-AACAACAAUUGGUCAUGCAGCAUGCUGCAG--GCAGCCAAUCAGCGAGUGGCGUUCUCUGACAUUGGCUGCCACAAA
....((..(((..(--(..-..))....))).)).(((((....)))))(--((((((((((((.(((.....))).))))..)))))))))..... ( -33.50)
>consensus
CC___AAGC_AGGC__GGC_AAAAACAAUUCCGAUUGCAGCAUGCAGCGGG_GCAGCCAAUCAGCGAGUGGCGUUCUCUGACAUUGGCUGCCACAAA
..................................((((.(....).))))..((((((((((((.(((.....))).))))..))))))))...... (-20.91 = -20.80 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:39 2006