Locus 5224

Sequence ID 3R_DroMel_CAF1
Location 13,673,641 – 13,673,751
Length 110
Max. P 0.764249
window8524 window8525

overview

Window 4

Location 13,673,641 – 13,673,751
Length 110
Sequences 3
Columns 118
Reading direction forward
Mean pairwise identity 81.27
Mean single sequence MFE -29.02
Consensus MFE -17.66
Energy contribution -18.89
Covariance contribution 1.23
Combinations/Pair 1.10
Mean z-score -2.27
Structure conservation index 0.61
SVM decision value 0.51
SVM RNA-class probability 0.764249
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13673641 110 + 27905053
GAUGGGGCAGGGGUGUGGAACACGUAUUAACUCGACACAUGUGUAAAUCCAAUUCAAAACAUGCCACGUGCAACCA--------CCCUGCCCCGCAUUUUCCACUCCCCCCCCCCCCC
...((((..((((.(((((((((((.............))))))................((((...(.(((....--------...))))..))))..))))).))))..))))... ( -32.92)
>DroEre_CAF1 42438 110 + 1
GAGGGGGCAGAGGGGUGUAACACGUAUUAACUCGACACAUGUGUAAAUCCAAUUCAAAACAUGCCACGUGCAACCAAGCUACCACCCUGCCCCCCGUUUUCCA-------CA-CCCAC
(.((((((((.(((((((.((((((.............)))))).................(((.....))).....)).))).)))))))))))........-------..-..... ( -31.12)
>DroYak_CAF1 39853 111 + 1
GAUGGUGCAGAGGGGUGCAACACGUAUUAACUCGACACAUGUGUAAAUCCAAUUCAAAACAUGCCACGUGCAACCAACUUACCACCCCGACCUCCGUUCUCCA-------UCCUCCAC
(((((.((.((((((((..((((((.............)))))).................(((.....)))..........))))))....)).))...)))-------))...... ( -23.02)
>consensus
GAUGGGGCAGAGGGGUGCAACACGUAUUAACUCGACACAUGUGUAAAUCCAAUUCAAAACAUGCCACGUGCAACCAA__UACCACCCUGCCCCCCGUUUUCCA_______CCCCCCAC
..((((((((..((((...((((((.............))))))..))))...........(((.....)))..............))))))))........................ (-17.66 = -18.89 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 13,673,641 – 13,673,751
Length 110
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 81.27
Mean single sequence MFE -40.60
Consensus MFE -27.55
Energy contribution -29.33
Covariance contribution 1.78
Combinations/Pair 1.10
Mean z-score -1.92
Structure conservation index 0.68
SVM decision value 0.49
SVM RNA-class probability 0.755288
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13673641 110 - 27905053
GGGGGGGGGGGGGAGUGGAAAAUGCGGGGCAGGG--------UGGUUGCACGUGGCAUGUUUUGAAUUGGAUUUACACAUGUGUCGAGUUAAUACGUGUUCCACACCCCUGCCCCAUC
...((((.(((((.(((((....(((..((((..--------...)))).))).((((((....((((.(((..((....))))).))))...))))))))))).))))).))))... ( -45.40)
>DroEre_CAF1 42438 110 - 1
GUGGG-UG-------UGGAAAACGGGGGGCAGGGUGGUAGCUUGGUUGCACGUGGCAUGUUUUGAAUUGGAUUUACACAUGUGUCGAGUUAAUACGUGUUACACCCCUCUGCCCCCUC
.....-..-------........(((((((((((.(((.((......))..(((((((((....((((.(((..((....))))).))))...)))))))))))).))))))))))). ( -44.50)
>DroYak_CAF1 39853 111 - 1
GUGGAGGA-------UGGAGAACGGAGGUCGGGGUGGUAAGUUGGUUGCACGUGGCAUGUUUUGAAUUGGAUUUACACAUGUGUCGAGUUAAUACGUGUUGCACCCCUCUGCACCAUC
......((-------(((....((((....(((((.((((.....))))..(..((((((....((((.(((..((....))))).))))...))))))..))))))))))..))))) ( -31.90)
>consensus
GUGGGGGG_______UGGAAAACGGGGGGCAGGGUGGUA__UUGGUUGCACGUGGCAUGUUUUGAAUUGGAUUUACACAUGUGUCGAGUUAAUACGUGUUACACCCCUCUGCCCCAUC
.........................(((((((((.(((.....(......)(((((((((....((((.(((..((....))))).))))...)))))))))))).)))))))))... (-27.55 = -29.33 +   1.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:30 2006