Locus 8213

Sequence ID	3L_DroMel_CAF1
Location	21,577,907 – 21,578,147
Length	240
Max. P	0.933322

overview

Window 5

Location	21,577,907 – 21,578,027
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	97.78
Mean single sequence MFE	-37.77
Consensus MFE	-38.21
Energy contribution	-37.77
Covariance contribution	-0.44
Combinations/Pair	1.05
Mean z-score	-1.81
Structure conservation index	1.01
SVM decision value	0.88
SVM RNA-class probability	0.873913
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21577907 120 - 23771897
ACGUCACAGUUUGCUUCGGAAUUUAUGGCCCAAACAGGGCCCUAAGUUCGGUUUAGUGUGCCAUUGUUCUGGUCGGUCCUCCUCACAUCUCCCAUGACAAUUGGCAAAACAAGAACGCCG
.(((....(((((((.(.(((((((.(((((.....))))).))))))).)...))).((((((((((.(((..(((.........)))..))).))))).)))))))))....)))... ( -37.70)
>DroSec_CAF1 25257 120 - 1
ACGUCACAGUUUACUUCGGAAUUUAUGGCCCAAACAGGGCCCUAAGUUCGGUUUAGUGUGCCAUUGUUCUGGUCGGUCCUCCUCACAUCUCCCAUGACAAUCGGCAGAACAAGAACGCCG
.(((....(((((((.(.(((((((.(((((.....))))).))))))).)...))).((((((((((.(((..(((.........)))..))).)))))).))))))))....)))... ( -37.80)
>DroSim_CAF1 25494 120 - 1
ACGUCACAGUUUACUUCGGAAUUUAUGGCCCAAACAGGGCCCUAAGUUCGGUUUAGUGUGCCAUUGUUCUGGUCGGUCCGCCUCACAUCUCCCAUGACAAUCGGCAGAACAAGAACGCCG
.(((....(((((((.(.(((((((.(((((.....))))).))))))).)...))).((((((((((.(((..(((.........)))..))).)))))).))))))))....)))... ( -37.80)
>consensus
ACGUCACAGUUUACUUCGGAAUUUAUGGCCCAAACAGGGCCCUAAGUUCGGUUUAGUGUGCCAUUGUUCUGGUCGGUCCUCCUCACAUCUCCCAUGACAAUCGGCAGAACAAGAACGCCG
.(((....(((((((.(.(((((((.(((((.....))))).))))))).)...))).((((((((((.(((..(((.........)))..))).)))))).))))))))....)))... (-38.21 = -37.77 +  -0.44)

alignment

secondary structure

dotplot

Window 6

Location	21,578,027 – 21,578,147
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	96.67
Mean single sequence MFE	-47.13
Consensus MFE	-45.36
Energy contribution	-45.37
Covariance contribution	0.01
Combinations/Pair	1.07
Mean z-score	-2.24
Structure conservation index	0.96
SVM decision value	1.23
SVM RNA-class probability	0.933322
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21578027 120 - 23771897
UGGUUUAGUUCAAUGACCAGCCGGGCAGGAGCCGCGCCAGAAGCCCAGCCGCACUAGUCACUCGUACUGCCAGCGAAACGACCUUGUGUUAGUGUAUCUGUGGGGCUACCUGCCGCUCAA
(((((.........)))))((..((((((((((.(((.(((.((...)).(((((((.(((((((..((....))..))))....)))))))))).)))))).)))).)))))))).... ( -43.10)
>DroSec_CAF1 25377 120 - 1
UGGUUUGGUUCAAUGACCAGCCAGGCAGGAGCCGCGCAAAAAGCCCAGCCGCACUAAUCACUCGUACUGCCAGCGAAACGACCUUGUGUUAGUGUAUCUGCGGGGCUACCUGCCGCUCAA
(((((.((((....)))))))))((((((((((.((((....((...)).(((((((.(((((((..((....))..))))....))))))))))...)))).)))).))))))...... ( -48.70)
>DroSim_CAF1 25614 120 - 1
UGGUUUGGUUCAAUGACCAGCCAGGCAGGAGCCGCGCAAGAAGCCCAGCCGCACUAAUCACUCGUACUGCCAGCGAAACGACCUUGUGUUAGUGUAUCUGCGGGGCUACCUGCCGCUCAA
(((((.((((....)))))))))((((((((((.((((.((.((...)).(((((((.(((((((..((....))..))))....)))))))))).)))))).)))).))))))...... ( -49.60)
>consensus
UGGUUUGGUUCAAUGACCAGCCAGGCAGGAGCCGCGCAAGAAGCCCAGCCGCACUAAUCACUCGUACUGCCAGCGAAACGACCUUGUGUUAGUGUAUCUGCGGGGCUACCUGCCGCUCAA
(((((.((((....)))))))))((((((((((.(((.(((.((...)).(((((((.(((((((..((....))..))))....)))))))))).)))))).)))).))))))...... (-45.36 = -45.37 +   0.01)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:34 2006