Locus 6798

Sequence ID 3R_DroMel_CAF1
Location 17,955,866 – 17,955,985
Length 119
Max. P 0.873165
window11033 window11034

overview

Window 3

Location 17,955,866 – 17,955,985
Length 119
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 82.24
Mean single sequence MFE -42.87
Consensus MFE -31.02
Energy contribution -31.30
Covariance contribution 0.28
Combinations/Pair 1.41
Mean z-score -2.56
Structure conservation index 0.72
SVM decision value 0.88
SVM RNA-class probability 0.873165
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17955866 119 + 27905053
ACUGCGGCAGAUGCAGCGGCAGUGCAAGGACAAGACGGACAAGUCCAACUACGAGCGAAAGCAGGCGACCGCCAAGGCGGAGGAGCUGGAACUGGAGUUGCAGUCCCGCCGUAGGGAGU
(((((.((.......)).)))))....((((...........))))..((((..((....)).(((..((((....)))).((..(((.(((....))).)))..)))))))))..... ( -50.40)
>DroVir_CAF1 789 119 + 1
GAUGCGGCAAAUGCAGCGUCAGUGCAAGGAUAAACUGGACAAAUCCAAUUACGAACGCAAACAGGCAACGGCCAAGGCCGAGGAACUGGAACUGGAGCUGCAAUCACGUCGCAAAGAGG
..((((((...((((((..((((((.((......))(((....)))..........))...(((.(..((((....))))..)..)))..))))..)))))).....))))))...... ( -39.90)
>DroGri_CAF1 407 119 + 1
GAUGCGUCAAAUGCAGCGCCAGUGCAAGGACAAACUUGACAAAUCCAAUUACGAACGCAAACAGGCAUCGGCCAAGGCUGAGGAACUGGAUCUGGAGCUGCAGUCGCGACGCAAGGAGG
..((((((...((((((.((((((((((......)))).)).(((((.........((......)).(((((....))))).....))))))))).)))))).....))))))...... ( -44.50)
>DroWil_CAF1 353 119 + 1
GUUAAGGCAGAUGCAGCGUCAAUGCAAAGAUAAAGUCGACAAAUGCAAUUACGAAAGGAAACAGGCUUCAGCCAAGGCUGAUGAACUUGAACAGGAGUUGCAAUCGCGUCGCAAGGAGA
......((.(((((.(((....)))..................(((((((.(....)....((((..(((((....)))))....))))......)))))))...)))))))....... ( -30.30)
>DroAna_CAF1 354 119 + 1
GCUGCGCCAGAUGCAGCGCCAGUGCAAGGACAAAGUGGACAAGUCCAACUACGAGCGGAAGCAGGCCGCUGCCAAGGCGGAGGAGCUGGAGCAGGAGCUGCAGUCCAGGCGCAAGGAGU
..((((((....((((((((.(((...((((...........))))...)))..((....)).)).)))))).........(((.(((.(((....))).)))))).))))))...... ( -49.40)
>DroPer_CAF1 357 119 + 1
GCUGCGGCAAAUGCAGCGUCAGUGCAAGGACAAGAUGGACAAAUCCAAUUACGAACGGAAACAGGCCUCAGCCAAGGCCGAGGAACUGGAACUGGAGCUGCAGUCCCGUCGCAAAGAGG
((.((((....((((((..((((....(..(.....)..)...((((.........(....)...((((.((....)).))))...))))))))..))))))...)))).))....... ( -42.70)
>consensus
GCUGCGGCAAAUGCAGCGUCAGUGCAAGGACAAAAUGGACAAAUCCAAUUACGAACGGAAACAGGCAUCAGCCAAGGCCGAGGAACUGGAACUGGAGCUGCAGUCCCGUCGCAAGGAGG
..((((((...((((((.(((((.(..((((...........))))...............(((....((((....)))).....)))).))))).)))))).....))))))...... (-31.02 = -31.30 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 17,955,866 – 17,955,985
Length 119
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 82.24
Mean single sequence MFE -39.47
Consensus MFE -25.05
Energy contribution -25.58
Covariance contribution 0.53
Combinations/Pair 1.43
Mean z-score -2.11
Structure conservation index 0.63
SVM decision value 0.29
SVM RNA-class probability 0.671042
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17955866 119 - 27905053
ACUCCCUACGGCGGGACUGCAACUCCAGUUCCAGCUCCUCCGCCUUGGCGGUCGCCUGCUUUCGCUCGUAGUUGGACUUGUCCGUCUUGUCCUUGCACUGCCGCUGCAUCUGCCGCAGU
.....((((((((((((((......)))))))(((.(..((((....))))..)...)))...)).)))))..((((..(.....)..))))....(((((.((.......)).))))) ( -43.00)
>DroVir_CAF1 789 119 - 1
CCUCUUUGCGACGUGAUUGCAGCUCCAGUUCCAGUUCCUCGGCCUUGGCCGUUGCCUGUUUGCGUUCGUAAUUGGAUUUGUCCAGUUUAUCCUUGCACUGACGCUGCAUUUGCCGCAUC
......((((..(..(.((((((..((((..(((.....((((....))))....)))...(((.....(((((((....)))))))......)))))))..)))))).)..))))).. ( -40.20)
>DroGri_CAF1 407 119 - 1
CCUCCUUGCGUCGCGACUGCAGCUCCAGAUCCAGUUCCUCAGCCUUGGCCGAUGCCUGUUUGCGUUCGUAAUUGGAUUUGUCAAGUUUGUCCUUGCACUGGCGCUGCAUUUGACGCAUC
......(((((((....((((((.((((((((((((.....((....))((((((......))).))).)))))))).((.((((......)))))))))).))))))..))))))).. ( -42.20)
>DroWil_CAF1 353 119 - 1
UCUCCUUGCGACGCGAUUGCAACUCCUGUUCAAGUUCAUCAGCCUUGGCUGAAGCCUGUUUCCUUUCGUAAUUGCAUUUGUCGACUUUAUCUUUGCAUUGACGCUGCAUCUGCCUUAAC
......((((.((((((((((((....)))((.(((..(((((....)))))))).)).........))))))))....(((((.............)))))).))))........... ( -24.52)
>DroAna_CAF1 354 119 - 1
ACUCCUUGCGCCUGGACUGCAGCUCCUGCUCCAGCUCCUCCGCCUUGGCAGCGGCCUGCUUCCGCUCGUAGUUGGACUUGUCCACUUUGUCCUUGCACUGGCGCUGCAUCUGGCGCAGC
.....(((((((.(((.((((((.((((((((((((.(...((....))(((((.......))))).).)))))))...(..(.....)..)..)))..)).)))))))))))))))). ( -45.60)
>DroPer_CAF1 357 119 - 1
CCUCUUUGCGACGGGACUGCAGCUCCAGUUCCAGUUCCUCGGCCUUGGCUGAGGCCUGUUUCCGUUCGUAAUUGGAUUUGUCCAUCUUGUCCUUGCACUGACGCUGCAUUUGCCGCAGC
.....(((((.((((..((((((..((((..(((..(((((((....))))))).))).........((((..((((..(.....)..))))))))))))..)))))))))).))))). ( -41.30)
>consensus
CCUCCUUGCGACGGGACUGCAGCUCCAGUUCCAGUUCCUCAGCCUUGGCCGAGGCCUGUUUCCGUUCGUAAUUGGAUUUGUCCACUUUGUCCUUGCACUGACGCUGCAUCUGCCGCAGC
.....((((((((.((.((((((..(((...(((.....((((....))))....))).........((((..((((..(.....)..)))))))).)))..)))))))))))))))). (-25.05 = -25.58 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:11 2006