Locus 6203

Sequence ID dm3.chr3L
Location 4,580,563 – 4,580,656
Length 93
Max. P 0.999197
window8522 window8523

overview

Window 2

Location 4,580,563 – 4,580,656
Length 93
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 88.51
Shannon entropy 0.20869
G+C content 0.51215
Mean single sequence MFE -41.82
Consensus MFE -38.01
Energy contribution -38.82
Covariance contribution 0.81
Combinations/Pair 1.13
Mean z-score -4.61
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.70
SVM RNA-class probability 0.999197
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 4580563 93 + 24543557
----------AUACAGAUUUU-GGGCACUGUUGGCGGAAUCCGCAAGAGAAGCUUGGCUGAGCACAGCCGGAACCUGAGUUGUUUUGUGGAUUCUGCUGACAGG
----------...........-.....((((..(((((((((((((((..((((((((((....)))))(....).))))).)))))))))))))))..)))). ( -44.40, z-score =  -5.63, R)
>droSim1.chr3L 4112212 93 + 22553184
----------AUACAGAUUUU-GGGCCCUGUUGGCGGAAUCCGCAAGAGAAGCUUGGCUGAACACAGCCGGAAUCUGAGUUGUUUUGUGGAUUCUGCUGACAGG
----------...........-....(((((..(((((((((((((((..((((((((((....))))).......))))).)))))))))))))))..))))) ( -44.81, z-score =  -5.91, R)
>droSec1.super_2 4562593 93 + 7591821
----------AUACAGAUUUU-GGGCCCUGUUGGCGGAAUCCGCAAGAGAAGCUUGGCUGAACACAGCCGGAAUCUGAGUUGUUUUGUGGAUUCUGCUGACAGG
----------...........-....(((((..(((((((((((((((..((((((((((....))))).......))))).)))))))))))))))..))))) ( -44.81, z-score =  -5.91, R)
>droYak2.chr3L 5154739 94 + 24197627
----------AUACAGAUUUUUGGGCCCUGUUGGCGGAAUCCGCAAGAGAAGCUUGGCUGAGCACAGCCGGAAUCUGAGUUGUUUUGUGGAUACUGCUGACAGG
----------................(((((..((((.((((((((((..((((((((((....))))).......))))).)))))))))).))))..))))) ( -40.41, z-score =  -4.36, R)
>droEre2.scaffold_4784 7290366 93 + 25762168
----------AUACAGAAUUU-GAGCCCGGUUGGCGGAAUCCGCAAGAGAAGCUUGGCUGAGCACAGCCGGAAUCUGAGUUGUUUUGUGGAUUCUGCUGACAGG
----------...........-....((.((..(((((((((((((((..((((((((((....))))).......))))).)))))))))))))))..)).)) ( -40.21, z-score =  -4.29, R)
>droAna3.scaffold_13337 2658497 104 + 23293914
ACACGGCCACACCGAGUUUUUGGGGCUAUGUUGGCGGAAUCCGCAAGUGAAGUUCGGCUGAACAUUGCCGGAAUCAGAGUUGUUGUGUUGAUUCUGCUGACAGG
....((((...((((....)))))))).(((..((((((((.(((((..(..((((((........)))))).......)..)).))).))))))))..))).. ( -36.30, z-score =  -1.53, R)
>consensus
__________AUACAGAUUUU_GGGCCCUGUUGGCGGAAUCCGCAAGAGAAGCUUGGCUGAACACAGCCGGAAUCUGAGUUGUUUUGUGGAUUCUGCUGACAGG
..........................(((((..(((((((((((((((..((((((((((....)))))(....).))))).)))))))))))))))..))))) (-38.01 = -38.82 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 4,580,563 – 4,580,656
Length 93
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 88.51
Shannon entropy 0.20869
G+C content 0.51215
Mean single sequence MFE -27.00
Consensus MFE -22.52
Energy contribution -24.02
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -2.30
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.67
SVM RNA-class probability 0.959752
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 4580563 93 - 24543557
CCUGUCAGCAGAAUCCACAAAACAACUCAGGUUCCGGCUGUGCUCAGCCAAGCUUCUCUUGCGGAUUCCGCCAACAGUGCCC-AAAAUCUGUAU----------
.((((..((.((((((...................(((((....)))))..((.......)))))))).))..)))).....-...........---------- ( -26.50, z-score =  -2.44, R)
>droSim1.chr3L 4112212 93 - 22553184
CCUGUCAGCAGAAUCCACAAAACAACUCAGAUUCCGGCUGUGUUCAGCCAAGCUUCUCUUGCGGAUUCCGCCAACAGGGCCC-AAAAUCUGUAU----------
(((((..((.((((((...................(((((....)))))..((.......)))))))).))..)))))....-...........---------- ( -30.20, z-score =  -3.65, R)
>droSec1.super_2 4562593 93 - 7591821
CCUGUCAGCAGAAUCCACAAAACAACUCAGAUUCCGGCUGUGUUCAGCCAAGCUUCUCUUGCGGAUUCCGCCAACAGGGCCC-AAAAUCUGUAU----------
(((((..((.((((((...................(((((....)))))..((.......)))))))).))..)))))....-...........---------- ( -30.20, z-score =  -3.65, R)
>droYak2.chr3L 5154739 94 - 24197627
CCUGUCAGCAGUAUCCACAAAACAACUCAGAUUCCGGCUGUGCUCAGCCAAGCUUCUCUUGCGGAUUCCGCCAACAGGGCCCAAAAAUCUGUAU----------
(((((..((.(.((((...................(((((....)))))..((.......)))))).).))..)))))................---------- ( -25.80, z-score =  -2.10, R)
>droEre2.scaffold_4784 7290366 93 - 25762168
CCUGUCAGCAGAAUCCACAAAACAACUCAGAUUCCGGCUGUGCUCAGCCAAGCUUCUCUUGCGGAUUCCGCCAACCGGGCUC-AAAUUCUGUAU----------
.......(((((((...............((.((((((((....)))))..((.......))))).)).(((.....)))..-..)))))))..---------- ( -26.40, z-score =  -2.17, R)
>droAna3.scaffold_13337 2658497 104 - 23293914
CCUGUCAGCAGAAUCAACACAACAACUCUGAUUCCGGCAAUGUUCAGCCGAACUUCACUUGCGGAUUCCGCCAACAUAGCCCCAAAAACUCGGUGUGGCCGUGU
.(((....))).....((((.........((.((((.(((.((((....)))).....))))))).)).((((.....(((..........))).)))).)))) ( -22.90, z-score =   0.17, R)
>consensus
CCUGUCAGCAGAAUCCACAAAACAACUCAGAUUCCGGCUGUGCUCAGCCAAGCUUCUCUUGCGGAUUCCGCCAACAGGGCCC_AAAAUCUGUAU__________
(((((..((.((((((...................(((((....)))))..((.......)))))))).))..))))).......................... (-22.52 = -24.02 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:03:05 2011