Locus 5495

Sequence ID	3R_DroMel_CAF1
Location	14,465,391 – 14,465,547
Length	156
Max. P	0.685262

overview

Window 9

Location	14,465,391 – 14,465,510
Length	119
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	94.97
Mean single sequence MFE	-45.83
Consensus MFE	-38.44
Energy contribution	-39.44
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.30
Structure conservation index	0.84
SVM decision value	0.32
SVM RNA-class probability	0.685262
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14465391 119 - 27905053
AGGCGGAGGCGGGAUGCAGCCAGCUGCGUUGAGGCAACCCAACCGCCUGCCUUGAUGUGUCAAACCGCAAGCUGACAAAACCGCAAGCCAA-AACUGCGUUCUCAACGCAAUUGCAUUUU
..(((((((((((..((((....))))((((.(....).))))..))))))).....(((((...(....).)))))...))))..((...-((.(((((.....))))).))))..... ( -42.60)
>DroSim_CAF1 23279 118 - 1
AGGCGGAGGCGGGAUGCAGCCAGCUGCGUUGAGGCAACCCAACCGCCUGCCUUGAUGUGUCAAG-CGCGGGCUGACAAAACCGCAAGCCAA-AACUGCGUUCUCAACGCAAUUGCAUUUU
.(((....((((...((((....))))((((.(....).)))).(((((((((((....)))))-.))))))........))))..)))..-...(((((.....))))).......... ( -47.40)
>DroYak_CAF1 25047 119 - 1
AGGCGGAGGCGGGAUGCAGCCAGCUGCGCUGAGGCAACCAAACCGCCUGCCCUGAUGUGUCAAG-CGCGGGCUGACAAAACCGCAAGCCAAAAACUGCGUUCUCAACGCAGUUGCAUUUU
.(((....((((..(((((((....(((((.((((.........))))....(((....)))))-))).))))).))...))))..)))...((((((((.....))))))))....... ( -47.50)
>consensus
AGGCGGAGGCGGGAUGCAGCCAGCUGCGUUGAGGCAACCCAACCGCCUGCCUUGAUGUGUCAAG_CGCGGGCUGACAAAACCGCAAGCCAA_AACUGCGUUCUCAACGCAAUUGCAUUUU
.(((....((((..(((((((.((((((((((((((...........)))))))))))).......)).))))).))...))))..)))......(((((.....))))).......... (-38.44 = -39.44 +   1.00)

alignment

secondary structure

dotplot

Window 0

Location	14,465,430 – 14,465,547
Length	117
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	85.11
Mean single sequence MFE	-45.53
Consensus MFE	-35.59
Energy contribution	-35.60
Covariance contribution	0.01
Combinations/Pair	1.15
Mean z-score	-1.80
Structure conservation index	0.78
SVM decision value	0.14
SVM RNA-class probability	0.603403
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14465430 117 - 27905053
---GAUAGCGAGGACCCACUGUACUUUAGUGCCUCAUUUCAGGCGGAGGCGGGAUGCAGCCAGCUGCGUUGAGGCAACCCAACCGCCUGCCUUGAUGUGUCAAACCGCAAGCUGACAAAA
---..((((((((...(((((.....))))))))).......((((.((((((..((((....))))((((.(....).))))..))))))((((....)))).))))..))))...... ( -45.50)
>DroSim_CAF1 23318 108 - 1
---CAUAGCGAGCUUCCACUGUACUUCAG--------UUCAGGCGGAGGCGGGAUGCAGCCAGCUGCGUUGAGGCAACCCAACCGCCUGCCUUGAUGUGUCAAG-CGCGGGCUGACAAAA
---........((((((.(((.((....)--------).)))..))))))(((((((((....)))))))(.(....).)..))(((((((((((....)))))-.))))))........ ( -43.90)
>DroYak_CAF1 25087 119 - 1
UGCCACACCGAGGCUCCACUGUACUUCAGCGCCUCAGUUCAGGCGGAGGCGGGAUGCAGCCAGCUGCGCUGAGGCAACCAAACCGCCUGCCCUGAUGUGUCAAG-CGCGGGCUGACAAAA
.(((.....(((((....(((.....))).)))))...(((((.(.((((((...((((....))))((....)).......)))))).))))))((((.....-)))))))........ ( -47.20)
>consensus
___CAUAGCGAGGAUCCACUGUACUUCAG_GCCUCA_UUCAGGCGGAGGCGGGAUGCAGCCAGCUGCGUUGAGGCAACCCAACCGCCUGCCUUGAUGUGUCAAG_CGCGGGCUGACAAAA
....((((.(......).))))...(((((........(((((.(.(((((((((((((....)))))))..(....)....)))))).))))))((((......)))).)))))..... (-35.59 = -35.60 +   0.01)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:36 2006