Locus 3770

Sequence ID dm3.chr2R
Location 7,758,461 – 7,758,609
Length 148
Max. P 0.915100
window5166 window5167

overview

Window 6

Location 7,758,461 – 7,758,554
Length 93
Sequences 8
Columns 99
Reading direction reverse
Mean pairwise identity 80.27
Shannon entropy 0.39458
G+C content 0.50479
Mean single sequence MFE -19.63
Consensus MFE -15.16
Energy contribution -14.16
Covariance contribution -1.00
Combinations/Pair 1.60
Mean z-score -1.01
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.36
SVM RNA-class probability 0.659024
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 7758461 93 - 21146708
AAAGGCAUUGAGAUGAGCGACGAUUUUGAUGCCAAGAUGCAGGAUGUGGAGAAACC------CGAGGAGGAUGACAGCGGUGAGUCCGAAGAAGAGGAG
...(((((..((((........))))..)))))........((((((......))(------((..(.......)..)))...))))............ ( -19.20, z-score =  -1.19, R)
>droSim1.chr2R 6295537 93 - 19596830
AAAGGCAUUGAGAUGAGUGACGAUUUUGAUGCCAAGAUGCAGGAUGUGGAGAAACC------CGAGGAGGAUGACAGCGGUGAGUCCGAAGAAGAGGAG
...(((((..((((........))))..)))))........((((((......))(------((..(.......)..)))...))))............ ( -19.20, z-score =  -1.47, R)
>droSec1.super_1 5309942 93 - 14215200
AAAGGCAUUGAGAUGAGUGACGAUUUUGAUGCCAAGAUGCAGGAUGUGGAGAAACC------CGAGGAGGAUGACAGCGGUGAGUCCGAAGAAGAGGAG
...(((((..((((........))))..)))))........((((((......))(------((..(.......)..)))...))))............ ( -19.20, z-score =  -1.47, R)
>droEre2.scaffold_4845 4551982 93 + 22589142
AAAGGCAUUGAGAUGAGUGACGAUUUUGAUGCCAAGAUGCAGGAUGUGGAGAAACC------CGAGGAGGAUGACAGCGGUGAGUCCGAGGAAGAGGAG
...(((((..((((........))))..)))))......................(------(..(((...(.((....)).).)))..))........ ( -19.30, z-score =  -1.25, R)
>droYak2.chr2R 11945599 93 + 21139217
AAAGGCAUUGAGAUGAGCGACGAUUUUGAUGCCAAGAUGCAAGAUGUGGAGAAACC------UGAGGAGGAUGACAGCGGUGAGUCCGAGGAUGAGGAG
...(((((..((((........))))..))))).....................((------(.(...((((.((....))..)))).....).))).. ( -21.20, z-score =  -1.86, R)
>droVir3.scaffold_12823 1781875 99 + 2474545
AAGGGCAUCGAAAUGAGCGACGACUUCGAUGCUAAAAUGCAGGACGUGGAGAAACCAGAGAACGAGGAGGAUGACAGUGGCGAAUCUGAAAAUGAAGAU
................((.((..(((((.(((......))).....(((.....))).....))))).(.....).)).))..((((........)))) ( -15.90, z-score =   0.51, R)
>droMoj3.scaffold_6496 3267029 99 - 26866924
AAGGGCAUCGAAAUGAGCGAUGAUUUCGAUGCCAAAAUGCAGGACGUGGAAAAGCCAGAGAACGAGGAGGAUGACAGUGGCGAAUCCGAGGAUGAGGAG
...(((((((((((.(....).)))))))))))......((...(.((((...((((....................))))...)))).)..))..... ( -26.35, z-score =  -2.48, R)
>anoGam1.chr2L 45687528 96 - 48795086
AAGGGAAUCGAUAUGAGUGAAGAUUUCGAUUCAAAGCUGCAGGAUAUGGAACGGCCGGAGGGUUCGGACUCGGAGGAAGAAAAGGACGAAGACGAG---
....(((((((.((........)).)))))))...((((............))))....(..((((..((............))..))))..)...--- ( -16.70, z-score =   1.12, R)
>consensus
AAAGGCAUUGAGAUGAGCGACGAUUUUGAUGCCAAGAUGCAGGAUGUGGAGAAACC______CGAGGAGGAUGACAGCGGUGAGUCCGAAGAAGAGGAG
...(((((((((((........)))))))))))...................................((((...........))))............ (-15.16 = -14.16 +  -1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 7,758,499 – 7,758,609
Length 110
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 88.67
Shannon entropy 0.20759
G+C content 0.49545
Mean single sequence MFE -25.34
Consensus MFE -18.75
Energy contribution -17.86
Covariance contribution -0.89
Combinations/Pair 1.35
Mean z-score -2.41
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.24
SVM RNA-class probability 0.915100
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 7758499 110 - 21146708
CCCAGAAGAUCGGAAAGACGAGGGUGAUAAACAGGAGCCAGACUGCAAGGAAGAGAAAGGCAUUGAGAUGAGCGACGAUUUUGAUGCCAAGAUGCAGGAUGUGGAGAAAC
.(((.....(((......))).................((..(((((...........(((((..((((........))))..)))))....)))))..)))))...... ( -23.16, z-score =  -2.04, R)
>droSim1.chr2R 6295575 110 - 19596830
CCCAGAGGAUCGGAAAGACGAGGGUGAUAAACAGGAGCCAGACUGGAAGGAAGAGAAAGGCAUUGAGAUGAGUGACGAUUUUGAUGCCAAGAUGCAGGAUGUGGAGAAAC
.((((....(((......))).(((..(.....)..)))...))))............(((((..((((........))))..)))))...................... ( -23.00, z-score =  -2.16, R)
>droSec1.super_1 5309980 110 - 14215200
CCCAGAGGAUCGGAAAGACGAGGGUGAUAAACAGGAGCCAGACUGCAAGGAAGAGAAAGGCAUUGAGAUGAGUGACGAUUUUGAUGCCAAGAUGCAGGAUGUGGAGAAAC
.(((.....(((......))).................((..(((((...........(((((..((((........))))..)))))....)))))..)))))...... ( -23.16, z-score =  -1.93, R)
>droEre2.scaffold_4845 4552020 110 + 22589142
ACCAGAGGAUCGGAAGGACGAGGGCGACAAACAGGAGCCAGACUGCAAGGAAGAGAAAGGCAUUGAGAUGAGUGACGAUUUUGAUGCCAAGAUGCAGGAUGUGGAGAAAC
.(((.(...(((......))).(((..(.....)..)))...(((((...........(((((..((((........))))..)))))....)))))..).)))...... ( -27.16, z-score =  -3.14, R)
>droWil1.scaffold_180745 105303 110 + 2843958
ACCAGAGGAUCGAAAAGAUGAUGGCGACAAGCAGGAACCCGAUUGCAAGGAAGAAAAGGGCAUUGAAAUGAGUGAUGAUUUUGAUGCUAAGAUGCAGGACGUUGAGAAGC
.(((....(((.....)))..)))((((..((((........))))............(((((..((((.(....).))))..)))))............))))...... ( -22.50, z-score =  -1.53, R)
>droGri2.scaffold_15245 8945700 110 - 18325388
CCCGGAGGACCGCAAGGAUGAGGGCGACAAAGAGGAGCCCGACUGCAAGGAGGAAAAGGGUAUUGAGAUGAGCGAUGAUUUCGAUGCUAAAAUGCAGGACGUGGAGAAAC
((((.....((....))....((((..(.....)..))))..(((((...........(((((((((((.(....).)))))))))))....)))))..)).))...... ( -33.06, z-score =  -3.64, R)
>consensus
CCCAGAGGAUCGGAAAGACGAGGGCGACAAACAGGAGCCAGACUGCAAGGAAGAGAAAGGCAUUGAGAUGAGUGACGAUUUUGAUGCCAAGAUGCAGGAUGUGGAGAAAC
.(((.....(((......))).(((..(.....)..)))...(((((...........(((((((((((........)))))))))))....)))))....)))...... (-18.75 = -17.86 +  -0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:16:24 2011