Locus 197

Sequence ID	2R_DroMel_CAF1
Location	1,454,088 – 1,454,248
Length	160
Max. P	0.994362

overview

Window 4

Location	1,454,088 – 1,454,208
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.33
Mean single sequence MFE	-47.68
Consensus MFE	-39.16
Energy contribution	-39.76
Covariance contribution	0.60
Combinations/Pair	1.07
Mean z-score	-2.66
Structure conservation index	0.82
SVM decision value	2.47
SVM RNA-class probability	0.994362
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1454088 120 - 20766785
CCGAAGUCGGAGGAGCACUGCCUGCCCUUAGCAGCCGUAAUGCGCACAUAUGUGUCCAUGUGCAUGUGUGGGCGUGCGAGUCAGUAUGUGUGGGUGCGGCGUUUCGGAAAUAAUGAAAUU
((((((.(.((((.(((.....)))))))....((((((.(.(((((((((...(((((((.((....)).))))).))....))))))))).))))))))))))))............. ( -45.30)
>DroSec_CAF1 72506 120 - 1
CCGAAGUCGGAGGAGCACUGCCUGCCCUUCGGAGCCGUAAUGCGCACAUAUGUGUCCAUGUACAUGUGUGGGCGUGCGAGUCAGUAUGUGUGGGUGCGGCGUUUCGGAAAUAAUGAAAUU
(((((((((((((.(((.....)))))))))).((((((.(.(((((((((...((((((..((....))..)))).))....))))))))).))))))).))))))............. ( -48.60)
>DroSim_CAF1 71215 120 - 1
CCGAAGUCGGAGGAGCACUGCCUGCCCUUCGGAGCCGUAAUGCGCACAUAUGUGUCCAUGUACAUGUGUGGGCGUGCGAGUCAGUAUGUGUGGGUGCGGCGUUUCGGAAAUAAUGAAAUU
(((((((((((((.(((.....)))))))))).((((((.(.(((((((((...((((((..((....))..)))).))....))))))))).))))))).))))))............. ( -48.60)
>DroEre_CAF1 82573 120 - 1
CCGAAGUCGGAGGAGCACUGCCUGCCCUUCGCAGCUGUAAUGCGCACAUAUGUGGCCAUGUGCAUGUGUGGGCGUGCGAGUCAGUAUGUGUGGGUGCGGUGUUUCGGAAAUAAUGAAAUU
(((....))).((((((((((..((((..((((((((..((((.(((((((((........))))))))).))))......)))).)))).))))))))))))))............... ( -50.70)
>DroYak_CAF1 76709 120 - 1
CCGAAGUCAGAAGAGCACUGCCUGGCCUUCGCAGCUCUGAUGCGCACAUAUGUGUUGAUGUGCAUGUGUGGGCGUGUAAGUCAGUAUGUGUGGGUGCGGUGUUUCGGAAAUAAUGAAAUU
(((((.((....))(((((((...((((.((((...(((((((.((((((((..(....)..)))))))).))......)))))..)))).))))))))))))))))............. ( -45.20)
>consensus
CCGAAGUCGGAGGAGCACUGCCUGCCCUUCGCAGCCGUAAUGCGCACAUAUGUGUCCAUGUGCAUGUGUGGGCGUGCGAGUCAGUAUGUGUGGGUGCGGCGUUUCGGAAAUAAUGAAAUU
((((((.((((((.(((.....)))))))))..(((((.((.(((((((((...(((((((.((....)).))))).))....))))))))).))))))).))))))............. (-39.16 = -39.76 +   0.60)

alignment

secondary structure

dotplot

Window 5

Location	1,454,128 – 1,454,248
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.33
Mean single sequence MFE	-45.88
Consensus MFE	-39.40
Energy contribution	-39.60
Covariance contribution	0.20
Combinations/Pair	1.11
Mean z-score	-1.50
Structure conservation index	0.86
SVM decision value	0.78
SVM RNA-class probability	0.849685
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1454128 120 - 20766785
AAUACCCCGAUCCUACUGAGUAGGGUAGAACGGUCCAUGUCCGAAGUCGGAGGAGCACUGCCUGCCCUUAGCAGCCGUAAUGCGCACAUAUGUGUCCAUGUGCAUGUGUGGGCGUGCGAG
...............(((...(((((((..((((.(.(.((((....)))).).).)))).)))))))...))).((((.(((.((((((((..(....)..)))))))).))))))).. ( -46.00)
>DroSec_CAF1 72546 120 - 1
AAUACCCCGAUCCGACUGAGUAGGGUAGAACGGUCCAUGUCCGAAGUCGGAGGAGCACUGCCUGCCCUUCGGAGCCGUAAUGCGCACAUAUGUGUCCAUGUACAUGUGUGGGCGUGCGAG
..........(((((......(((((((..((((.(.(.((((....)))).).).)))).))))))))))))..((((.(((.((((((((((......)))))))))).))))))).. ( -47.80)
>DroSim_CAF1 71255 120 - 1
AAUACCCCGAUCCGACUGAGUAGGGUAGAACGGUCCAUGUCCGAAGUCGGAGGAGCACUGCCUGCCCUUCGGAGCCGUAAUGCGCACAUAUGUGUCCAUGUACAUGUGUGGGCGUGCGAG
..........(((((......(((((((..((((.(.(.((((....)))).).).)))).))))))))))))..((((.(((.((((((((((......)))))))))).))))))).. ( -47.80)
>DroEre_CAF1 82613 120 - 1
AAUACCCCAAACCGGCUGAGUAGGGUAGAACGGUCCAUGUCCGAAGUCGGAGGAGCACUGCCUGCCCUUCGCAGCUGUAAUGCGCACAUAUGUGGCCAUGUGCAUGUGUGGGCGUGCGAG
............((((((...(((((((..((((.(.(.((((....)))).).).)))).)))))))...))))))..((((.(((((((((........))))))))).))))..... ( -49.60)
>DroYak_CAF1 76749 115 - 1
AAUACCCC-----GACUGUGUAGGGUAGAACAGUCCAUGUCCGAAGUCAGAAGAGCACUGCCUGGCCUUCGCAGCUCUGAUGCGCACAUAUGUGUUGAUGUGCAUGUGUGGGCGUGUAAG
..(((...-----(((((((.(((.(((..((((.(...((.(....).))...).)))).))).))).))))).))..((((.((((((((..(....)..)))))))).))))))).. ( -38.20)
>consensus
AAUACCCCGAUCCGACUGAGUAGGGUAGAACGGUCCAUGUCCGAAGUCGGAGGAGCACUGCCUGCCCUUCGCAGCCGUAAUGCGCACAUAUGUGUCCAUGUGCAUGUGUGGGCGUGCGAG
...............(((...(((((((..((((.(.(.((((....)))).).).)))).)))))))...))).(((.((((.((((((((((......)))))))))).))))))).. (-39.40 = -39.60 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:11 2006