Locus 5836

Sequence ID	X_DroMel_CAF1
Location	15,099,896 – 15,100,006
Length	110
Max. P	0.994358

overview

Window 8

Location	15,099,896 – 15,100,006
Length	110
Sequences	5
Columns	117
Reading direction	forward
Mean pairwise identity	91.49
Mean single sequence MFE	-40.60
Consensus MFE	-33.80
Energy contribution	-33.92
Covariance contribution	0.12
Combinations/Pair	1.13
Mean z-score	-1.63
Structure conservation index	0.83
SVM decision value	0.86
SVM RNA-class probability	0.869155
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15099896 110 + 22224390
UUGUUGUUGAUUUGGUCGGAAUGCCAA-------AGGGGCGUUGGCGAUUUCGAUGGCGCUGGCUGGCCAUUUGGGUGGCUCAAACGCGGCAUAAGUCCGGCGACCGGUAAUUGAAA
..(((((((((((((((((((((((((-------.......))))).))))))))(.(((.(..(((((((....))))).))..)))).).))))).)))))))............ ( -37.60)
>DroSec_CAF1 12802 110 + 1
UUGUUGUUGAUUUGGUCGGAAUGCCAA-------AGGGGCGUUGGCGAUUUCGAUGGCGCUGCUUGGCCAUUUGGGUGGCUCAAACGCGGCAUAAAUCCGGCGACCGGUAAUUGAAA
..((..((((..(.((((..(((((..-------...))))))))).)..))))..))(((((((((((((....))))).)))..)))))......((((...))))......... ( -39.80)
>DroSim_CAF1 17034 110 + 1
UUGUUGUUGAUUUGGUCGGAAUGCCAA-------AGGGGCGUUGGCGAUUUCGAUGGCGCUGCUUGGCCAUUUGGGUGGCUCAAACGCGGCAUAAAUCCGGCGACCGGUAAUUGAAA
..((..((((..(.((((..(((((..-------...))))))))).)..))))..))(((((((((((((....))))).)))..)))))......((((...))))......... ( -39.80)
>DroEre_CAF1 20582 109 + 1
CAGUUGUUGAUGUGGGCGAAAUGCCAG--------GGGGCGUUGGCGAUUUCGAUGGCGCUGGCUGGCCAUUUGGAUGGCUCAAACGCGGCAUAAAUCCGGCGACCGGUAAUUGGAA
((((((..(.(((.(((((((((((((--------......))))).))))))(((.(((.(..(((((((....))))).))..)))).)))....)).)))..)..))))))... ( -38.30)
>DroYak_CAF1 17841 117 + 1
CAGUUGUUGAUGUGGUCGGAAUGCCAGAAUGCCGAGGGGCGUUGGCAAUUUCGAUGGUGCUGGUUGGCCAUUUGGGUGGCUCAAACGCGGCAUAAAUCCGGCGACCGGUAAUUGAAA
((((((..(..((.((((((.(((((..(((((....)))))))))).........(((((((((((((((....))))))..))).))))))...)))))).)))..))))))... ( -47.50)
>consensus
UUGUUGUUGAUUUGGUCGGAAUGCCAA_______AGGGGCGUUGGCGAUUUCGAUGGCGCUGGUUGGCCAUUUGGGUGGCUCAAACGCGGCAUAAAUCCGGCGACCGGUAAUUGAAA
..(((((((((((((((((((((((((..............))))).))))))))(.(((.(.((((((((....))))).))).)))).).))))).)))))))............ (-33.80 = -33.92 +   0.12)

alignment

secondary structure

dotplot

Window 9

Location	15,099,896 – 15,100,006
Length	110
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	91.49
Mean single sequence MFE	-30.70
Consensus MFE	-25.71
Energy contribution	-25.91
Covariance contribution	0.20
Combinations/Pair	1.07
Mean z-score	-2.34
Structure conservation index	0.84
SVM decision value	2.47
SVM RNA-class probability	0.994358
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15099896 110 - 22224390
UUUCAAUUACCGGUCGCCGGACUUAUGCCGCGUUUGAGCCACCCAAAUGGCCAGCCAGCGCCAUCGAAAUCGCCAACGCCCCU-------UUGGCAUUCCGACCAAAUCAACAACAA
...........(((((........(((.(((..(((.((((......)))))))...))).))).......(((((.......-------)))))....)))))............. ( -26.60)
>DroSec_CAF1 12802 110 - 1
UUUCAAUUACCGGUCGCCGGAUUUAUGCCGCGUUUGAGCCACCCAAAUGGCCAAGCAGCGCCAUCGAAAUCGCCAACGCCCCU-------UUGGCAUUCCGACCAAAUCAACAACAA
...........(((((...((((((((.((((((((.((((......))))))))).))).)))..)))))(((((.......-------)))))....)))))............. ( -33.90)
>DroSim_CAF1 17034 110 - 1
UUUCAAUUACCGGUCGCCGGAUUUAUGCCGCGUUUGAGCCACCCAAAUGGCCAAGCAGCGCCAUCGAAAUCGCCAACGCCCCU-------UUGGCAUUCCGACCAAAUCAACAACAA
...........(((((...((((((((.((((((((.((((......))))))))).))).)))..)))))(((((.......-------)))))....)))))............. ( -33.90)
>DroEre_CAF1 20582 109 - 1
UUCCAAUUACCGGUCGCCGGAUUUAUGCCGCGUUUGAGCCAUCCAAAUGGCCAGCCAGCGCCAUCGAAAUCGCCAACGCCCC--------CUGGCAUUUCGCCCACAUCAACAACUG
.........((((...))))....(((.(((..(((.(((((....))))))))...))).)))((((((.((((.......--------.))))))))))................ ( -28.30)
>DroYak_CAF1 17841 117 - 1
UUUCAAUUACCGGUCGCCGGAUUUAUGCCGCGUUUGAGCCACCCAAAUGGCCAACCAGCACCAUCGAAAUUGCCAACGCCCCUCGGCAUUCUGGCAUUCCGACCACAUCAACAACUG
...........((((((((((...(((((((..(((.((((......)))))))...))......((....((....))...))))))))))))).....))))............. ( -30.80)
>consensus
UUUCAAUUACCGGUCGCCGGAUUUAUGCCGCGUUUGAGCCACCCAAAUGGCCAACCAGCGCCAUCGAAAUCGCCAACGCCCCU_______UUGGCAUUCCGACCAAAUCAACAACAA
...........(((((...((((((((.(((..(((.((((......)))))))...))).)))..)))))((((................))))....)))))............. (-25.71 = -25.91 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:31 2006