Locus 5913

Sequence ID	2L_DroMel_CAF1
Location	16,701,449 – 16,701,609
Length	160
Max. P	0.990273

overview

Window 3

Location	16,701,449 – 16,701,569
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	98.50
Mean single sequence MFE	-44.54
Consensus MFE	-44.56
Energy contribution	-44.00
Covariance contribution	-0.56
Combinations/Pair	1.07
Mean z-score	-1.75
Structure conservation index	1.00
SVM decision value	2.20
SVM RNA-class probability	0.990273
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16701449 120 - 22407834
CCAAUUCGUCGCGGGUCUCCAUGACCACCUCGACGGCGGAGGAGAAUCUCAUAGAAUCGAAGCUCUUCAGCUGGAUGCGUCUAUUCCGAUUCGCCUCGCUGCUCUGCCGCGCCGAGUAAC
...(((((.((((((((.....)))).....(((((((.(((.(((((..((((((((..((((....)))).)))...)))))...))))).)))))))).))...)))).)))))... ( -44.30)
>DroSec_CAF1 156206 120 - 1
CCAAUUCGUCGCGGGUCUCCAUGACCACCUCGACGGCGGAGGAGAAUCUCAUAGAAUCGAAGCUCUUCAGCUGGAUGCGUCUAUUCCGAUUCGCCUCGCUGCUCUGCCGCGCCGAGUAAC
...(((((.((((((((.....)))).....(((((((.(((.(((((..((((((((..((((....)))).)))...)))))...))))).)))))))).))...)))).)))))... ( -44.30)
>DroSim_CAF1 156138 120 - 1
CCAAUUCGUCGCGGGUCUCCAUGACCACCUCGACGGCGGAGGAGAAUCUCAUAGAAUCGAAGCUCUUCAGCUGGAUGCGUCUAUUCCGAUUCGCCUCGCUGCUCUGCCGCGCCGAGUAAC
...(((((.((((((((.....)))).....(((((((.(((.(((((..((((((((..((((....)))).)))...)))))...))))).)))))))).))...)))).)))))... ( -44.30)
>DroEre_CAF1 157596 120 - 1
CCAAUUCGUCGCGGGUCUCCAUGACCACAUCGACGGCGGAGGAGAAUCUCAUAGAAUCGAAGCUCUUCAGCUGGAUGCGUUUAUUCCGGUUCGCCUCGCUGCUCUGCCGCGCCGAGUAAC
...(((((.((((((((.....)))).((.(((.((((((((((..((..........))..))))))(((((((.........)))))))))))))).))......)))).)))))... ( -43.80)
>DroYak_CAF1 156002 120 - 1
CCAACUCGUCGCGGGUCUCCAUGACCACCUCGACGGCGGAGGAGAAUCUCAUAGAAUCGAAGCUCUUCAGCUGGAUGCGUCUAUUCCGGUUCGCCUCGCUGCUCUGCCGCGCCGAGUAAC
...(((((.((((((((.....)))).....(((((((.(((.(((((..((((((((..((((....)))).)))...)))))...))))).)))))))).))...)))).)))))... ( -46.00)
>consensus
CCAAUUCGUCGCGGGUCUCCAUGACCACCUCGACGGCGGAGGAGAAUCUCAUAGAAUCGAAGCUCUUCAGCUGGAUGCGUCUAUUCCGAUUCGCCUCGCUGCUCUGCCGCGCCGAGUAAC
...(((((.((((((((.....)))).....(((((((.(((.(((((..((((((((..((((....)))).)))...)))))...))))).)))))))).))...)))).)))))... (-44.56 = -44.00 +  -0.56)

alignment

secondary structure

dotplot

Window 4

Location	16,701,489 – 16,701,609
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	98.50
Mean single sequence MFE	-41.42
Consensus MFE	-41.38
Energy contribution	-41.14
Covariance contribution	-0.24
Combinations/Pair	1.03
Mean z-score	-1.23
Structure conservation index	1.00
SVM decision value	0.40
SVM RNA-class probability	0.722634
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16701489 120 - 22407834
UCGCCCAGGAUCAUGCAGCAGAAACGGAGCAGCAAGUCCUCCAAUUCGUCGCGGGUCUCCAUGACCACCUCGACGGCGGAGGAGAAUCUCAUAGAAUCGAAGCUCUUCAGCUGGAUGCGU
...........(((.((((.((...(((((......((((((...((((((..((((.....))))....)))))).))))))((.((.....)).))...))))))).)))).)))... ( -41.70)
>DroSec_CAF1 156246 120 - 1
UCGCCCAGGAUUAUGCAGCAGAAACGGAGCAGCAAGUCCUCCAAUUCGUCGCGGGUCUCCAUGACCACCUCGACGGCGGAGGAGAAUCUCAUAGAAUCGAAGCUCUUCAGCUGGAUGCGU
............(((((.(((....(((((......((((((...((((((..((((.....))))....)))))).))))))((.((.....)).))...)))))....)))..))))) ( -41.00)
>DroSim_CAF1 156178 120 - 1
UCGCCCAAGAUUAUGCAGCAGAAACGGAGCAGCAAGUCCUCCAAUUCGUCGCGGGUCUCCAUGACCACCUCGACGGCGGAGGAGAAUCUCAUAGAAUCGAAGCUCUUCAGCUGGAUGCGU
............(((((.(((....(((((......((((((...((((((..((((.....))))....)))))).))))))((.((.....)).))...)))))....)))..))))) ( -41.00)
>DroEre_CAF1 157636 120 - 1
UCGCCCAGGAUCAUGCAGCAGAAACGGAGCAGCAAGUCCUCCAAUUCGUCGCGGGUCUCCAUGACCACAUCGACGGCGGAGGAGAAUCUCAUAGAAUCGAAGCUCUUCAGCUGGAUGCGU
...........(((.((((.((...(((((......((((((...((((((..((((.....))))....)))))).))))))((.((.....)).))...))))))).)))).)))... ( -41.70)
>DroYak_CAF1 156042 120 - 1
UCGCCCAGGAUCAUGCAGCAGAAACGGAGCAGCAAGUCCUCCAACUCGUCGCGGGUCUCCAUGACCACCUCGACGGCGGAGGAGAAUCUCAUAGAAUCGAAGCUCUUCAGCUGGAUGCGU
...........(((.((((.((...(((((......((((((...((((((..((((.....))))....)))))).))))))((.((.....)).))...))))))).)))).)))... ( -41.70)
>consensus
UCGCCCAGGAUCAUGCAGCAGAAACGGAGCAGCAAGUCCUCCAAUUCGUCGCGGGUCUCCAUGACCACCUCGACGGCGGAGGAGAAUCUCAUAGAAUCGAAGCUCUUCAGCUGGAUGCGU
...........(((.((((.((...(((((......((((((...((((((..((((.....))))....)))))).))))))((.((.....)).))...))))))).)))).)))... (-41.38 = -41.14 +  -0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:19 2006