Locus 2086

Sequence ID	X_DroMel_CAF1
Location	5,691,003 – 5,691,116
Length	113
Max. P	0.998006

overview

Window 1

Location	5,691,003 – 5,691,116
Length	113
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	91.06
Mean single sequence MFE	-38.16
Consensus MFE	-32.00
Energy contribution	-32.76
Covariance contribution	0.76
Combinations/Pair	1.09
Mean z-score	-1.70
Structure conservation index	0.84
SVM decision value	1.09
SVM RNA-class probability	0.913475
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5691003 113 + 22224390
AGAACUCGACCAGCAAACGAAUGGCCAUCGUCUGUCUGCAGCCGGAGCAUCUCGUGAAUUCCACCUGUAAGUCAUCGAUGGACAAGUGCAUUCCGCGGCUGGACAAGUUCAUA
.(((((.(.(((((....(((((.((((((..((.((((((..((((..((....)).))))..)))).)).)).)))))).......)))))....))))).).)))))... ( -37.20)
>DroSec_CAF1 11257 113 + 1
AGAACUCGACCAGCAAACGAAUGGCCAUCAUCUGCCUGCAGCCGGAGCAUCUGGUGAAAUCCAUCUGCAAGUCAUCGAUGGAUAAGUGCAUUCCGCGACUGGACAAGUUCAUA
.(((((.(.((((.....(((((..(((((..((((((....))).)))..)))))..(((((((...........))))))).....))))).....)))).).)))))... ( -33.60)
>DroSim_CAF1 12236 113 + 1
AGAACUCGACCAGCAAACGGAUGGCCAUCGUCUGUCUGCAGCCGGAGCAUCUGGUGAAAUCCAUCUGCAAGUCAUCGAUGGACAAGUGCAUUCCGCGGCUGGACAAGUUCAUG
.(((((.(.(((((...((((((.((((((..((.((((((..(((...((....))..)))..)))).)).)).)))))).)).......))))..))))).).)))))... ( -41.51)
>DroEre_CAF1 10837 113 + 1
AGAAUUCGACCAGCAAGCGCAUGGCCAUCGCCUGUGUGCAGCCGGAGCAUCUGGUGAGAUCCACAUGCAAGUCAUCGAUGGACAAGUGCAUUCCCAGGCUGGACAAGUUCAUG
.(((((.(.(((((..(((((((((....))).))))))....(((((((.(((......))).))))..(((.......)))........)))...))))).).)))))... ( -38.60)
>DroYak_CAF1 12472 113 + 1
AGAACUCGACCAGCAAACGAAUGGCCAUCGCCUGUGUGCAGCCGGAGCAUCUGGUGCGUUCCACAUGCAAGUCAUCGAUGGACAAGUGCAUUCCCAUGCUGGACAAGUUCAUG
.(((((.(.((((((...(((((.(((((((.((((((((.((((.....))))))))...)))).))..(....)))))).......)))))...)))))).).)))))... ( -39.90)
>consensus
AGAACUCGACCAGCAAACGAAUGGCCAUCGUCUGUCUGCAGCCGGAGCAUCUGGUGAAAUCCACCUGCAAGUCAUCGAUGGACAAGUGCAUUCCGCGGCUGGACAAGUUCAUG
.(((((.(.(((((....(((((.((((((......(((((..(((...((....))..)))..)))))......)))))).......)))))....))))).).)))))... (-32.00 = -32.76 +   0.76)

alignment

secondary structure

dotplot

Window 2

Location	5,691,003 – 5,691,116
Length	113
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	91.06
Mean single sequence MFE	-43.28
Consensus MFE	-36.62
Energy contribution	-37.70
Covariance contribution	1.08
Combinations/Pair	1.05
Mean z-score	-2.56
Structure conservation index	0.85
SVM decision value	2.98
SVM RNA-class probability	0.998006
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5691003 113 - 22224390
UAUGAACUUGUCCAGCCGCGGAAUGCACUUGUCCAUCGAUGACUUACAGGUGGAAUUCACGAGAUGCUCCGGCUGCAGACAGACGAUGGCCAUUCGUUUGCUGGUCGAGUUCU
...(((((((.(((((.((((...(((((((((((((...........)))))).....)))).))).....))))....((((((.......))))))))))).))))))). ( -41.80)
>DroSec_CAF1 11257 113 - 1
UAUGAACUUGUCCAGUCGCGGAAUGCACUUAUCCAUCGAUGACUUGCAGAUGGAUUUCACCAGAUGCUCCGGCUGCAGGCAGAUGAUGGCCAUUCGUUUGCUGGUCGAGUUCU
...(((((((.(((((.(((.((((.......((((((.((.(((((((.((((..((....))...)))).)))))))))..)))))).)))))))..))))).))))))). ( -44.00)
>DroSim_CAF1 12236 113 - 1
CAUGAACUUGUCCAGCCGCGGAAUGCACUUGUCCAUCGAUGACUUGCAGAUGGAUUUCACCAGAUGCUCCGGCUGCAGACAGACGAUGGCCAUCCGUUUGCUGGUCGAGUUCU
...(((((((.(((((.(((((.......((.((((((.((..((((((.((((..((....))...)))).)))))).))..)))))).)))))))..))))).))))))). ( -47.01)
>DroEre_CAF1 10837 113 - 1
CAUGAACUUGUCCAGCCUGGGAAUGCACUUGUCCAUCGAUGACUUGCAUGUGGAUCUCACCAGAUGCUCCGGCUGCACACAGGCGAUGGCCAUGCGCUUGCUGGUCGAAUUCU
...(((.(((.(((((..(((...(((..((.(((((........((((.(((......))).))))...(.(((....))).)))))).))))).)))))))).))).))). ( -37.60)
>DroYak_CAF1 12472 113 - 1
CAUGAACUUGUCCAGCAUGGGAAUGCACUUGUCCAUCGAUGACUUGCAUGUGGAACGCACCAGAUGCUCCGGCUGCACACAGGCGAUGGCCAUUCGUUUGCUGGUCGAGUUCU
...(((((((.((((((.(.(((((.....(.(((((........((((.(((......))).))))...(.(((....))).)))))))))))).).)))))).))))))). ( -46.00)
>consensus
CAUGAACUUGUCCAGCCGCGGAAUGCACUUGUCCAUCGAUGACUUGCAGGUGGAUUUCACCAGAUGCUCCGGCUGCAGACAGACGAUGGCCAUUCGUUUGCUGGUCGAGUUCU
...(((((((.(((((....(((((....((.((((((.((...(((((.((((..((....))...)))).)))))..))..)))))).))..)))))))))).))))))). (-36.62 = -37.70 +   1.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:54 2006