Locus 3347

Sequence ID	X_DroMel_CAF1
Location	8,950,277 – 8,950,419
Length	142
Max. P	0.897523

overview

Window 9

Location	8,950,277 – 8,950,379
Length	102
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	80.52
Mean single sequence MFE	-33.95
Consensus MFE	-23.28
Energy contribution	-23.23
Covariance contribution	-0.05
Combinations/Pair	1.41
Mean z-score	-2.23
Structure conservation index	0.69
SVM decision value	1.00
SVM RNA-class probability	0.897523
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8950277 102 + 22224390
UCCGGAACCAGAUGGCUCGGCUGCCUCCGGAUUGCGUAGUCCCGCUCGCUCUUCGCGAGCCCGCUGCGCCAUCAUACGCAGCAUAUCCUCCUUCUUCUCCUU
...(((...(((.((....(((((.....(((.(((((((...((((((.....))))))..))))))).)))....)))))....))....)))..))).. ( -39.50)
>DroVir_CAF1 580 102 + 1
GCCAGAACCGCCGGGUGCAUCAGGCUCUGGAUUGCGUAUGCCCGCACGUUCCUCGCGUGCACGUUGCGCCAUCAUGCGCAGCAUAUCCUCCUUCUUCUCCUU
.(((((...(((.((....)).))))))))...(.((((((..((((((.....))))))....(((((......))))))))))).).............. ( -32.10)
>DroSec_CAF1 586 102 + 1
UCCGGAACCGGAUGUCUCGGCUGCCUCCGGAUUGCGUAGUCCCGCUCGCUCUUCGCGAGCCCGUUGCGCCAUCAUACGCAGCAUAUCCUCCUUCUUCUCCUU
...(((...((((((....(((((.....(((.((((((.(..((((((.....))))))..))))))).)))....))))))))))))))........... ( -36.60)
>DroEre_CAF1 586 102 + 1
UCCUAGUCCGGAUGGUUCGGCUGCCUCCGGAUUUCGUAGUCCUGCUCGCUCUUCGCGAGCCCGCUGUGCCAUCAUACGCAGCAUAUCCUCCUUCUUCUCCUU
....((((((((.(((......)))))))))))..........((((((.....))))))..((((((........)))))).................... ( -34.40)
>DroMoj_CAF1 580 96 + 1
------ACCACCCGGUGCAUCUGGUUCGGGAUUGCGUAAGCCAGCACGUUCCUCGCGUGCACGUUGCGCCAUCAUACGCAGCAUGUCCUCCUUCUUCUCCUU
------.....((((.....))))...(((((.((....))..((((((.....))))))..((((((........))))))..)))))............. ( -27.80)
>DroAna_CAF1 586 102 + 1
CCCCGAACCGGAUGGCUCGGCUCCCUCGGGGUUGCGCAAGCCAGCUCGUUCCUCACGUGCCCGUUGGGCCAUCAUGCGGAGCAUAUCCUCCUUCUUUUCCUU
....(((...((((((((((((((....)))..((....))..((.(((.....))).))..)))))))))))....((((......)))))))........ ( -33.30)
>consensus
UCCGGAACCGGAUGGCUCGGCUGCCUCCGGAUUGCGUAGGCCCGCUCGCUCCUCGCGAGCCCGUUGCGCCAUCAUACGCAGCAUAUCCUCCUUCUUCUCCUU
.............((....(((((.....(((.((((((....((((((.....))))))...)))))).)))....)))))....)).............. (-23.28 = -23.23 +  -0.05)

alignment

secondary structure

dotplot

Window 0

Location	8,950,299 – 8,950,419
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	82.22
Mean single sequence MFE	-36.01
Consensus MFE	-22.10
Energy contribution	-23.05
Covariance contribution	0.95
Combinations/Pair	1.40
Mean z-score	-1.81
Structure conservation index	0.61
SVM decision value	-0.04
SVM RNA-class probability	0.513682
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8950299 120 + 22224390
GCCUCCGGAUUGCGUAGUCCCGCUCGCUCUUCGCGAGCCCGCUGCGCCAUCAUACGCAGCAUAUCCUCCUUCUUCUCCUUCUCCUUUUGGGCCAGCUUCUUUUCCAGCUGGGAGCGUGCC
((.....(((.(((((((...((((((.....))))))..))))))).)))....)).((((...((((............(((....))).(((((........))))))))).)))). ( -42.10)
>DroVir_CAF1 602 120 + 1
GGCUCUGGAUUGCGUAUGCCCGCACGUUCCUCGCGUGCACGUUGCGCCAUCAUGCGCAGCAUAUCCUCCUUCUUCUCCUUCUCUUUCUGUGCCAGCUUCUUCUCCAACUGAGCACGCGCC
(((.(.(((..(.((((((..((((((.....))))))....(((((......))))))))))).))))...................(((((((............))).))))).))) ( -35.60)
>DroSec_CAF1 608 120 + 1
GCCUCCGGAUUGCGUAGUCCCGCUCGCUCUUCGCGAGCCCGUUGCGCCAUCAUACGCAGCAUAUCCUCCUUCUUCUCCUUCUCCUUUUGGGCAAGCUUCUUUUCCAGCUGGGAGCGUGCC
((.....(((.((((((.(..((((((.....))))))..))))))).)))....)).((((...(((((...........(((....)))..((((........))))))))).)))). ( -35.60)
>DroWil_CAF1 614 120 + 1
ACUUCAGGAUUCCGUAGUCCAGCACGUUCUUCGCGGGCUCUUUGGGCCAUUAAACGAAGCAUAUCCUCUUUUUUCUCCUUCUCCUUUUGGGCCAAUUUUUUUUCAAGUUGGGCUCGCGCC
......((((......))))...........(((((((((.((((.(((......((((..................))))......))).))))..............))))))))).. ( -28.33)
>DroMoj_CAF1 596 120 + 1
GGUUCGGGAUUGCGUAAGCCAGCACGUUCCUCGCGUGCACGUUGCGCCAUCAUACGCAGCAUGUCCUCCUUCUUCUCCUUCUCUUUCUGCGCCAACUUCUUCUCCAGCUGGGCGCGAGCU
((((((((((.((....))..((((((.....))))))..((((((........))))))..))))).....................(((((..((........))...)))))))))) ( -38.30)
>DroAna_CAF1 608 120 + 1
CCCUCGGGGUUGCGCAAGCCAGCUCGUUCCUCACGUGCCCGUUGGGCCAUCAUGCGGAGCAUAUCCUCCUUCUUUUCCUUCUCCUUCUGAGCCAGUUUCUUCUCCAGCUGGGCGCGCGCU
......(((((((....).))))))........(((((((((((((.......((((((......))))...........(((.....)))...))......)))))).))))))).... ( -36.12)
>consensus
GCCUCCGGAUUGCGUAGGCCAGCACGUUCCUCGCGUGCCCGUUGCGCCAUCAUACGCAGCAUAUCCUCCUUCUUCUCCUUCUCCUUCUGGGCCAGCUUCUUCUCCAGCUGGGCGCGCGCC
......((((...........((((((.....))))))..((((((........))))))..))))......................(((((((((........))))).))))..... (-22.10 = -23.05 +   0.95)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:05 2006