Locus 50

Sequence ID	3L_DroMel_CAF1
Location	176,463 – 176,583
Length	120
Max. P	0.992477

overview

Window 8

Location	176,463 – 176,583
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	97.78
Mean single sequence MFE	-43.70
Consensus MFE	-43.02
Energy contribution	-43.13
Covariance contribution	0.11
Combinations/Pair	1.02
Mean z-score	-2.82
Structure conservation index	0.98
SVM decision value	2.01
SVM RNA-class probability	0.985621
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 176463 120 + 23771897
CACAGUGACUGCUGGAGAGGAUGUAGACGCCGAGUACUUACUCGCAUUUGCAAGCAGCUCGUUUUUACGUUCCUCUUCCAGCUCCCUAGCCAUUUCCAUCUCGUUGAGGAGAUGUUGGGU
..........(((((((((((((((((.((.((((.....((.((....)).))..)))))).)))))).))))).))))))..((((((.((((((.((.....)))))))))))))). ( -44.50)
>DroSec_CAF1 10178 120 + 1
AACAGUGACUGCUGGAGAGGAUGUAGACGCCGAGUACUUACUCGCAUUUGCAAGCAGCUCGUUUUUACGUUCCUCUUCCAGCUCCCUAGCCAUUUCCAUCUCGUUGAGGAGAUGUUGGGU
..........(((((((((((((((((.((.((((.....((.((....)).))..)))))).)))))).))))).))))))..((((((.((((((.((.....)))))))))))))). ( -44.50)
>DroYak_CAF1 10381 120 + 1
AACAGUGACUGCUGGAGAGGAUGUAGACGCCGAGUACUUACUCGCAUUUGCAAGCAGCUCGUUUUUACGCUCCUCUUCCAGCUCUCUUGCCAUUUCCAUCUCGUUGAGGAGAUGUUGGGU
..(((.((..(((((((((((((((((.((.((((.....((.((....)).))..)))))).)))))).))))).))))))..)))))(((....((((((......)))))).))).. ( -42.10)
>consensus
AACAGUGACUGCUGGAGAGGAUGUAGACGCCGAGUACUUACUCGCAUUUGCAAGCAGCUCGUUUUUACGUUCCUCUUCCAGCUCCCUAGCCAUUUCCAUCUCGUUGAGGAGAUGUUGGGU
..........(((((((((((((((((.((.((((.....((.((....)).))..)))))).)))))).))))).))))))..((((((.((((((.((.....)))))))))))))). (-43.02 = -43.13 +   0.11)

alignment

secondary structure

dotplot

Window 9

Location	176,463 – 176,583
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	97.78
Mean single sequence MFE	-43.47
Consensus MFE	-42.95
Energy contribution	-42.73
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-3.39
Structure conservation index	0.99
SVM decision value	2.33
SVM RNA-class probability	0.992477
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 176463 120 - 23771897
ACCCAACAUCUCCUCAACGAGAUGGAAAUGGCUAGGGAGCUGGAAGAGGAACGUAAAAACGAGCUGCUUGCAAAUGCGAGUAAGUACUCGGCGUCUACAUCCUCUCCAGCAGUCACUGUG
.(((..(((.(((((.....)).))).)))....))).((((((.(((((..(((.(..((((.(((((((........)))))))))))...).))).))))))))))).......... ( -43.00)
>DroSec_CAF1 10178 120 - 1
ACCCAACAUCUCCUCAACGAGAUGGAAAUGGCUAGGGAGCUGGAAGAGGAACGUAAAAACGAGCUGCUUGCAAAUGCGAGUAAGUACUCGGCGUCUACAUCCUCUCCAGCAGUCACUGUU
.(((..(((.(((((.....)).))).)))....))).((((((.(((((..(((.(..((((.(((((((........)))))))))))...).))).))))))))))).......... ( -43.00)
>DroYak_CAF1 10381 120 - 1
ACCCAACAUCUCCUCAACGAGAUGGAAAUGGCAAGAGAGCUGGAAGAGGAGCGUAAAAACGAGCUGCUUGCAAAUGCGAGUAAGUACUCGGCGUCUACAUCCUCUCCAGCAGUCACUGUU
..(((.((((((......))))))....)))...((..((((((.(((((..(((.(..((((.(((((((........)))))))))))...).))).)))))))))))..))...... ( -44.40)
>consensus
ACCCAACAUCUCCUCAACGAGAUGGAAAUGGCUAGGGAGCUGGAAGAGGAACGUAAAAACGAGCUGCUUGCAAAUGCGAGUAAGUACUCGGCGUCUACAUCCUCUCCAGCAGUCACUGUU
..(((.((((((......))))))....)))...((..((((((.(((((..(((.(..((((.(((((((........)))))))))))...).))).)))))))))))..))...... (-42.95 = -42.73 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:00 2006