Locus 14411

Sequence ID dm3.chrX
Location 13,175,278 – 13,175,374
Length 96
Max. P 0.992875
window19839 window19840

overview

Window 9

Location 13,175,278 – 13,175,374
Length 96
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 88.40
Shannon entropy 0.18603
G+C content 0.54005
Mean single sequence MFE -20.20
Consensus MFE -16.56
Energy contribution -16.62
Covariance contribution 0.06
Combinations/Pair 1.06
Mean z-score -1.59
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.25
SVM RNA-class probability 0.613998
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13175278 96 + 22422827
-CAAAAGUCAGUAGAUCCCACUGUACAGACCCACCAAC---CCACCCAUUAUACCCCCCCACUUUUCGGCCCAAUGAGAGGAGCAACAAACGCACAGUGG
-................(((((((..............---....................(((((((......))))))).((.......))))))))) ( -16.60, z-score =  -1.43, R)
>droSim1.chrX 10074026 94 + 17042790
-CAAAAGUUAGUAGAUCCCACUGUACAGAGCCACCA-----CCCCCCAUUAAACCCCCCCACUUUUCGGCCGAAUGAGAGGAGCAACAAACGCACAGUGG
-................(((((((............-----....................(((((((......))))))).((.......))))))))) ( -16.60, z-score =  -1.17, R)
>droSec1.super_21 930579 94 + 1102487
-CAAAAGUUAGUAGAUCCCACUGUACAGAGCCACCA-----CCUCCCAUUAAACCCCCCCACUUUUCGGCCGAAUGAGAGGAGCAACAAACGCACAGUGG
-................(((((((............-----((((.((((...((............))...)))).)))).((.......))))))))) ( -20.20, z-score =  -2.20, R)
>droYak2.chrX 7452510 99 + 21770863
CAAAAAGUUAGUAGAUCCCACUGUACAGAGCCACCACCACGCCCCCCGGUGAAUCCCCCU-CUGUUCGGGCGAACGAGAGGAGCAACAAACGCACAGUGG
.................(((((((...((..((((............))))..))..(((-((((((....)))).))))).((.......))))))))) ( -27.40, z-score =  -1.53, R)
>consensus
_CAAAAGUUAGUAGAUCCCACUGUACAGAGCCACCA_____CCCCCCAUUAAACCCCCCCACUUUUCGGCCGAAUGAGAGGAGCAACAAACGCACAGUGG
.................(((((((.....................................(((((((......))))))).((.......))))))))) (-16.56 = -16.62 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 13,175,278 – 13,175,374
Length 96
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 88.40
Shannon entropy 0.18603
G+C content 0.54005
Mean single sequence MFE -38.48
Consensus MFE -30.95
Energy contribution -31.95
Covariance contribution 1.00
Combinations/Pair 1.07
Mean z-score -3.18
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.57
SVM RNA-class probability 0.992875
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13175278 96 - 22422827
CCACUGUGCGUUUGUUGCUCCUCUCAUUGGGCCGAAAAGUGGGGGGGUAUAAUGGGUGG---GUUGGUGGGUCUGUACAGUGGGAUCUACUGACUUUUG-
(((((...((((...((((((((.((((.........)))))))))))).)))))))))---((..((((((((........))))))))..)).....- ( -35.20, z-score =  -2.49, R)
>droSim1.chrX 10074026 94 - 17042790
CCACUGUGCGUUUGUUGCUCCUCUCAUUCGGCCGAAAAGUGGGGGGGUUUAAUGGGGGG-----UGGUGGCUCUGUACAGUGGGAUCUACUAACUUUUG-
((((((((((...((..(((((((((((..(((............)))..)))))))))-----.))..))..))))))))))................- ( -38.70, z-score =  -3.84, R)
>droSec1.super_21 930579 94 - 1102487
CCACUGUGCGUUUGUUGCUCCUCUCAUUCGGCCGAAAAGUGGGGGGGUUUAAUGGGAGG-----UGGUGGCUCUGUACAGUGGGAUCUACUAACUUUUG-
((((((((((...((..(((((((((((..(((............)))..)))))))))-----.))..))..))))))))))................- ( -39.60, z-score =  -4.23, R)
>droYak2.chrX 7452510 99 - 21770863
CCACUGUGCGUUUGUUGCUCCUCUCGUUCGCCCGAACAG-AGGGGGAUUCACCGGGGGGCGUGGUGGUGGCUCUGUACAGUGGGAUCUACUAACUUUUUG
((((((((((...((..((((((((((((....)))).)-))))))...(((((.(...).))))))..))..))))))))))................. ( -40.40, z-score =  -2.17, R)
>consensus
CCACUGUGCGUUUGUUGCUCCUCUCAUUCGGCCGAAAAGUGGGGGGGUUUAAUGGGGGG_____UGGUGGCUCUGUACAGUGGGAUCUACUAACUUUUG_
((((((((((...((..(((((((((((.((((............)))).)))))))))......))..))..))))))))))................. (-30.95 = -31.95 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:39:40 2011