Locus 1835

Sequence ID 2L_DroMel_CAF1
Location 5,070,177 – 5,070,297
Length 120
Max. P 0.960558
window2946 window2947

overview

Window 6

Location 5,070,177 – 5,070,297
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.22
Mean single sequence MFE -41.67
Consensus MFE -41.02
Energy contribution -40.80
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.33
Structure conservation index 0.98
SVM decision value 1.52
SVM RNA-class probability 0.960558
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5070177 120 + 22407834
GCUAUCUUCUACUUCCUCACGGACAAGGAGAACUCCCAGGGCCAUCUGCAGGCCAUCGAGAGCAUACUCGAGUUCACCGAUGCCGAGAAGCAGAAGAUCAGCGCCGCCAAUCGAACGCCA
((((((((((.((((....(((.((.((.((((((....((((.......))))...(((......))))))))).))..))))).)))).))))))).))).................. ( -41.20)
>DroSim_CAF1 465 120 + 1
GCUAUCUUCUACUUCCUCACGGACAAGGAGAACUCGCAGGGCCAUCUGCAGGCCAUCGAGAGCAUACUCGAGUUCACCGACGCCGAGAAGCAGAAGAUCAGCGCCGCCAACCGAACGCCA
((((((((((.((((....(((....((.((((((....((((.......))))...(((......))))))))).))....))).)))).))))))).))).................. ( -42.10)
>DroYak_CAF1 601 120 + 1
GCUAUCUUCUACUUCCUCACGGACAAGGAGAACUCCCAGGGCCAUCUGCAGGCCAUCGAGAGCAUCCUCGAGUUCACCGAUGUCGAGAAGCAGAAGAUCAGCGCCGCCAAUCGAACGCCA
((((((((((.((((.((...((((.((.((((((....((((.......))))...(((......))))))))).))..)))))))))).))))))).))).................. ( -41.70)
>consensus
GCUAUCUUCUACUUCCUCACGGACAAGGAGAACUCCCAGGGCCAUCUGCAGGCCAUCGAGAGCAUACUCGAGUUCACCGAUGCCGAGAAGCAGAAGAUCAGCGCCGCCAAUCGAACGCCA
((((((((((.((((....(((....((.((((((....((((.......))))...(((......))))))))).))....))).)))).))))))).))).................. (-41.02 = -40.80 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 5,070,177 – 5,070,297
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.22
Mean single sequence MFE -50.83
Consensus MFE -50.24
Energy contribution -49.80
Covariance contribution -0.44
Combinations/Pair 1.05
Mean z-score -2.21
Structure conservation index 0.99
SVM decision value 1.38
SVM RNA-class probability 0.947834
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5070177 120 - 22407834
UGGCGUUCGAUUGGCGGCGCUGAUCUUCUGCUUCUCGGCAUCGGUGAACUCGAGUAUGCUCUCGAUGGCCUGCAGAUGGCCCUGGGAGUUCUCCUUGUCCGUGAGGAAGUAGAAGAUAGC
.(((((.((.....))))))).((((((((((((((((((..((.(((((((((....))).(.(.((((.......)))).).))))))).)).)).)))...)))))))))))))... ( -51.10)
>DroSim_CAF1 465 120 - 1
UGGCGUUCGGUUGGCGGCGCUGAUCUUCUGCUUCUCGGCGUCGGUGAACUCGAGUAUGCUCUCGAUGGCCUGCAGAUGGCCCUGCGAGUUCUCCUUGUCCGUGAGGAAGUAGAAGAUAGC
.(((((.((.....))))))).((((((((((((((((((..((.(((((((((....))).....((((.......))))....)))))).)).)).)))...)))))))))))))... ( -50.30)
>DroYak_CAF1 601 120 - 1
UGGCGUUCGAUUGGCGGCGCUGAUCUUCUGCUUCUCGACAUCGGUGAACUCGAGGAUGCUCUCGAUGGCCUGCAGAUGGCCCUGGGAGUUCUCCUUGUCCGUGAGGAAGUAGAAGAUAGC
.(((((.((.....))))))).(((((((((((((...((.(((......((((((.(((((((..((((.......)))).)))))))..)))))).))))).)))))))))))))... ( -51.10)
>consensus
UGGCGUUCGAUUGGCGGCGCUGAUCUUCUGCUUCUCGGCAUCGGUGAACUCGAGUAUGCUCUCGAUGGCCUGCAGAUGGCCCUGGGAGUUCUCCUUGUCCGUGAGGAAGUAGAAGAUAGC
.(((((.((.....))))))).((((((((((((..((((..((.(((((((((......)))...((((.......))))....)))))).)).))))(....)))))))))))))... (-50.24 = -49.80 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:24 2006