Locus 13424

Sequence ID dm3.chrX
Location 6,472,491 – 6,472,600
Length 109
Max. P 0.969857
window18484 window18485

overview

Window 4

Location 6,472,491 – 6,472,600
Length 109
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 71.53
Shannon entropy 0.55704
G+C content 0.60006
Mean single sequence MFE -41.77
Consensus MFE -20.74
Energy contribution -22.55
Covariance contribution 1.81
Combinations/Pair 1.36
Mean z-score -1.67
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.40
SVM RNA-class probability 0.935439
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6472491 109 + 22422827
GGAACGGGCUCGGGAUCCGAGUCUGUACCGGGUUCUGGAGCACCCAACACAGGCAGCCGCUUGAGCGUGCCCUCGAAAGAGGAUUCGGGCACGGAAAGCGGCGAGGAUU
((.((((((((((...)))))))))).))((((.(....).))))..........(((((((...(((((((((....))......)))))))..)))))))....... ( -53.20, z-score =  -3.47, R)
>droWil1.scaffold_180702 4396632 100 + 4511350
---------GAAGCAUUGUCUACAGGAACAGGGUCAACAGGAACUCCGCAAGUGACAAGACUGAGUGUGCCUCAAAAGGAGGAUUCGGGUACUGAGAGUGGUGAGGAUU
---------....((((((((.(((..((...((((...((....)).....))))....((((((...((((.....)))))))))))).)))))).)))))...... ( -23.40, z-score =   0.76, R)
>droAna3.scaffold_12929 3031827 94 + 3277472
---------CCGGGAUCACAAACGGCAGUAGGAGCAGGAGGA------GCACCCACUCGCUUGAGUGUGCCGUCCAAAGAGGAUUCGGGCACAGAAAGUGGCGAGGAUC
---------..(((.((.....(.((.......)).)...))------...))).((((((....((((((((((.....))))...))))))......)))))).... ( -28.60, z-score =  -0.44, R)
>droEre2.scaffold_4690 15403749 109 + 18748788
GGGGCUGGAUCGGGAUCCGAAUCUGUACCGGGUUCUGGAGCACCCAGCACAGGCAGCCGCUUGAGCGUGCCCUCGAAAGAGGAUUCCGGCACGGAAAGCGGCGAGGAUU
((((((...((((((((((.........))))))))))))).))).((....)).(((((((...(((((((((....)))(....)))))))..)))))))....... ( -50.40, z-score =  -2.32, R)
>droYak2.chrX 2439137 109 + 21770863
GGAACUGGGUCGGGAUCCGAAUCCGUACCAGGCUCUGGAGCACCCAGCACAGGCAGCCGCUUAAGCGUGCCCUCGAAAGAGGAUUCCGGCACGGAAAGCGGCGAAGAUU
....((((((..((((....))))((.((((...)))).))))))))........(((((((...(((((((((....)))(....)))))))..)))))))....... ( -45.10, z-score =  -1.90, R)
>droSec1.super_4 5850621 109 - 6179234
GGAACGGGCUCGGGAUCCGAGUCUGUACCGGGUUCUGGAGCACCCAACACAGGCAGUCGCUUGAGCGUGCCCUCGAAAGAGGAUUCCGGCACGGAAAGCGGCGAGGAUU
((.((((((((((...)))))))))).))((((.(....).))))..........(((((((...(((((((((....)))(....)))))))..)))))))....... ( -49.90, z-score =  -2.67, R)
>consensus
GGAAC_GG_UCGGGAUCCGAAUCUGUACCAGGUUCUGGAGCACCCAACACAGGCAGCCGCUUGAGCGUGCCCUCGAAAGAGGAUUCCGGCACGGAAAGCGGCGAGGAUU
...........(((.((((...((......))...))))...)))..........(((((((...(((((((((....)))......))))))..)))))))....... (-20.74 = -22.55 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 6,472,491 – 6,472,600
Length 109
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 71.53
Shannon entropy 0.55704
G+C content 0.60006
Mean single sequence MFE -37.18
Consensus MFE -19.93
Energy contribution -22.43
Covariance contribution 2.50
Combinations/Pair 1.41
Mean z-score -1.73
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.82
SVM RNA-class probability 0.969857
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6472491 109 - 22422827
AAUCCUCGCCGCUUUCCGUGCCCGAAUCCUCUUUCGAGGGCACGCUCAAGCGGCUGCCUGUGUUGGGUGCUCCAGAACCCGGUACAGACUCGGAUCCCGAGCCCGUUCC
.......(((((((..((((((((((......)))..)))))))...)))))))...(((((..((((........))))..))))).(((((...)))))........ ( -47.30, z-score =  -3.49, R)
>droWil1.scaffold_180702 4396632 100 - 4511350
AAUCCUCACCACUCUCAGUACCCGAAUCCUCCUUUUGAGGCACACUCAGUCUUGUCACUUGCGGAGUUCCUGUUGACCCUGUUCCUGUAGACAAUGCUUC---------
.................((.((((((.......)))).)).))....(((.(((((((..((((.(((......))).))))....)).))))).)))..--------- ( -17.00, z-score =   0.78, R)
>droAna3.scaffold_12929 3031827 94 - 3277472
GAUCCUCGCCACUUUCUGUGCCCGAAUCCUCUUUGGACGGCACACUCAAGCGAGUGGGUGC------UCCUCCUGCUCCUACUGCCGUUUGUGAUCCCGG---------
((((............((((((....(((.....))).))))))..((((((((((((.((------.......)).))))))..)))))).))))....--------- ( -30.60, z-score =  -2.42, R)
>droEre2.scaffold_4690 15403749 109 - 18748788
AAUCCUCGCCGCUUUCCGUGCCGGAAUCCUCUUUCGAGGGCACGCUCAAGCGGCUGCCUGUGCUGGGUGCUCCAGAACCCGGUACAGAUUCGGAUCCCGAUCCAGCCCC
.......(((((((..((((((.(((......)))...))))))...))))))).(((((((((((((........)))))))))))....((((....)))).))... ( -48.10, z-score =  -3.33, R)
>droYak2.chrX 2439137 109 - 21770863
AAUCUUCGCCGCUUUCCGUGCCGGAAUCCUCUUUCGAGGGCACGCUUAAGCGGCUGCCUGUGCUGGGUGCUCCAGAGCCUGGUACGGAUUCGGAUCCCGACCCAGUUCC
.......(((((((..((((((.(((......)))...))))))...)))))))...((((((..(((........)))..))))))..((((...))))......... ( -42.80, z-score =  -1.39, R)
>droSec1.super_4 5850621 109 + 6179234
AAUCCUCGCCGCUUUCCGUGCCGGAAUCCUCUUUCGAGGGCACGCUCAAGCGACUGCCUGUGUUGGGUGCUCCAGAACCCGGUACAGACUCGGAUCCCGAGCCCGUUCC
.........(((((..((((((.(((......)))...))))))...))))).....(((((..((((........))))..))))).(((((...)))))........ ( -37.30, z-score =  -0.54, R)
>consensus
AAUCCUCGCCGCUUUCCGUGCCCGAAUCCUCUUUCGAGGGCACGCUCAAGCGGCUGCCUGUGCUGGGUGCUCCAGAACCCGGUACAGAUUCGGAUCCCGA_CC_GUUCC
.((((....(((((..((((((.(((......)))...))))))...))))).....(((((((((((........)))))))))))....)))).............. (-19.93 = -22.43 +   2.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:21:08 2011