Locus 2144

Sequence ID	3L_DroMel_CAF1
Location	5,834,453 – 5,834,547
Length	94
Max. P	0.966327

overview

Window 6

Location	5,834,453 – 5,834,547
Length	94
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	95.51
Mean single sequence MFE	-32.10
Consensus MFE	-27.36
Energy contribution	-27.56
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.90
Structure conservation index	0.85
SVM decision value	1.59
SVM RNA-class probability	0.966327
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5834453 94 + 23771897
CAUCAACAAGCCAGCCAGCUAGCCGGCGAUUCGGGCAACAACAGGUGAGAGAUCUUGGCUGUUUGCUGCCCCAACGAAGCUGGUUUUUGUUUCU
...(((.((((((((..(((....))).....(((((.((((((.((((....)))).))).))).))))).......)))))))))))..... ( -32.50)
>DroSec_CAF1 42047 94 + 1
CAUCAACAAGCCAGCCAGCUAGCCGGCGAUUCGGGCAACAACAGGUGAGAGAUCUUGGCUGUUUGCUGCCCCAACGAAGCUGGUUUUUGUUUCU
...(((.((((((((..(((....))).....(((((.((((((.((((....)))).))).))).))))).......)))))))))))..... ( -32.50)
>DroSim_CAF1 25050 94 + 1
CAUCAACAAGCCAGCCAGCUAGCCGGCGAUUCGUGCAACAACAGGUGAGAGAUCUUGGCUGUUUGCUGCCCCAACGAAGCUGGUUUUUGUUUCU
...(((.((((((((..(((....)))..((((((((.((((((.((((....)))).))).))).)))....))))))))))))))))..... ( -29.20)
>DroEre_CAF1 43166 90 + 1
CAUCAACUAGC----CAGCUAGCCGGCGAUUCGGGCAACAACAGGUGAGAGAUCUUGGCUGUUUGCUGCCCCACCGAAGCUGGUUUUUCUUUCU
........(((----(((((...(((.(....(((((.((((((.((((....)))).))).))).)))))).))).))))))))......... ( -32.20)
>DroYak_CAF1 46022 90 + 1
CAUCAACAAGC----CAGCUAGCCGGCGAUUCGGGCAACAACAGGUGAGAGAUCUUGGCUGUUUGCUGCCCCACCGAAGCUGGUUUUUGUUUCU
...(((.((((----(((((...(((.(....(((((.((((((.((((....)))).))).))).)))))).))).))))))))))))..... ( -34.10)
>consensus
CAUCAACAAGCCAGCCAGCUAGCCGGCGAUUCGGGCAACAACAGGUGAGAGAUCUUGGCUGUUUGCUGCCCCAACGAAGCUGGUUUUUGUUUCU
........(((......)))(((((((.....(((((.((((((.((((....)))).))).))).))))).......)))))))......... (-27.36 = -27.56 +   0.20)

alignment

secondary structure

dotplot

Window 7

Location	5,834,453 – 5,834,547
Length	94
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	95.51
Mean single sequence MFE	-34.36
Consensus MFE	-25.88
Energy contribution	-27.28
Covariance contribution	1.40
Combinations/Pair	1.00
Mean z-score	-2.64
Structure conservation index	0.75
SVM decision value	0.64
SVM RNA-class probability	0.808693
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5834453 94 - 23771897
AGAAACAAAAACCAGCUUCGUUGGGGCAGCAAACAGCCAAGAUCUCUCACCUGUUGUUGCCCGAAUCGCCGGCUAGCUGGCUGGCUUGUUGAUG
............((((...(((.(((((((((.(((...((....))...)))))))))))).))).(((((((....)))))))..))))... ( -35.20)
>DroSec_CAF1 42047 94 - 1
AGAAACAAAAACCAGCUUCGUUGGGGCAGCAAACAGCCAAGAUCUCUCACCUGUUGUUGCCCGAAUCGCCGGCUAGCUGGCUGGCUUGUUGAUG
............((((...(((.(((((((((.(((...((....))...)))))))))))).))).(((((((....)))))))..))))... ( -35.20)
>DroSim_CAF1 25050 94 - 1
AGAAACAAAAACCAGCUUCGUUGGGGCAGCAAACAGCCAAGAUCUCUCACCUGUUGUUGCACGAAUCGCCGGCUAGCUGGCUGGCUUGUUGAUG
...(((((...(((((...))))).(((((((.(((...((....))...)))))))))).......(((((((....)))))))))))).... ( -30.50)
>DroEre_CAF1 43166 90 - 1
AGAAAGAAAAACCAGCUUCGGUGGGGCAGCAAACAGCCAAGAUCUCUCACCUGUUGUUGCCCGAAUCGCCGGCUAGCUG----GCUAGUUGAUG
...........(((((((((((((((((((((.(((...((....))...))))))))))))....))))))..)))))----).......... ( -34.30)
>DroYak_CAF1 46022 90 - 1
AGAAACAAAAACCAGCUUCGGUGGGGCAGCAAACAGCCAAGAUCUCUCACCUGUUGUUGCCCGAAUCGCCGGCUAGCUG----GCUUGUUGAUG
...(((((...(((((((((((((((((((((.(((...((....))...))))))))))))....))))))..)))))----).))))).... ( -36.60)
>consensus
AGAAACAAAAACCAGCUUCGUUGGGGCAGCAAACAGCCAAGAUCUCUCACCUGUUGUUGCCCGAAUCGCCGGCUAGCUGGCUGGCUUGUUGAUG
.........(((.(((...(((.(((((((((.(((...((....))...)))))))))))).))).(((((....)))))..))).))).... (-25.88 = -27.28 +   1.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:27 2006