SnpEff: Variant analysis

Contents
Summary
Variant rate by chromosome
Variants by type
Number of variants by impact
Number of variants by functional class
Number of variants by effect
Quality histogram
InDel length histogram
Base variant table
Transition vs transversions (ts/tv)
Allele frequency
Allele Count
Codon change table
Amino acid change table
Chromosome variants plots
Details by gene
Summary

Genome BDGP5.75
Date 2018-04-23 09:09
SnpEff version 
SnpEff 4.3i (build 2016-12-15 22:33), by Pablo Cingolani
Command line arguments 
SnpEff  BDGP5.75 D.melanogaster.vcf
Warnings 52,319
Errors 13,517
Number of lines (input file) 162,597
Number of variants (before filter) 162,619
Number of not variants
(i.e. reference equals alternative) 		0
Number of variants processed
(i.e. after filter and non-variants) 		162,619
Number of known variants
(i.e. non-empty ID) 		0 ( 0% )
Number of multi-allelic VCF entries
(i.e. more than two alleles) 		22
Number of effects 771,232
Genome total length 168,736,538
Genome effective length 120,381,547
Variant rate 1 variant every 740 bases

Variants rate details

Chromosome Length Variants Variants rate
4 1,351,857 576 2,346
2L 23,011,544 35,686 644
2R 21,146,708 25,878 817
3L 24,543,557 37,083 661
3R 27,905,053 28,349 984
X 22,422,827 21,930 1,022
Y 1 0 0
Total 120,381,547 162,619 740

Number variantss by type

Type Total
SNP 150,419
MNP 0
INS 5,921
DEL 6,279
MIXED 0
INV 0
DUP 0
BND 0
INTERVAL 0
Total 162,619

Number of effects by impact

Type (alphabetical order)   Count Percent
HIGH   4,612 0.609%
LOW   34,322 4.53%
MODERATE   27,025 3.567%
MODIFIER   691,756 91.295%

Number of effects by functional class

Type (alphabetical order)   Count Percent
MISSENSE   26,222 54.16%
NONSENSE   1,230 2.54%
SILENT   20,964 43.3%

Missense / Silent ratio: 1.2508

Number of effects by type and region

Type Region
Type (alphabetical order)   Count Percent
3_prime_UTR_variant   17,977 2.361%
5_prime_UTR_premature_start_codon_gain_variant   1,039 0.136%
5_prime_UTR_variant   9,038 1.187%
conservative_inframe_deletion   241 0.032%
conservative_inframe_insertion   241 0.032%
disruptive_inframe_deletion   275 0.036%
disruptive_inframe_insertion   221 0.029%
downstream_gene_variant   180,778 23.745%
frameshift_variant   2,752 0.361%
initiator_codon_variant   24 0.003%
intergenic_region   45,611 5.991%
intron_variant   259,903 34.138%
missense_variant   26,116 3.43%
non_canonical_start_codon   12 0.002%
non_coding_transcript_exon_variant   956 0.126%
non_coding_transcript_variant   5 0.001%
splice_acceptor_variant   268 0.035%
splice_donor_variant   240 0.032%
splice_region_variant   3,126 0.411%
start_lost   48 0.006%
stop_gained   1,364 0.179%
stop_lost   71 0.009%
stop_retained_variant   21 0.003%
synonymous_variant   30,885 4.057%
upstream_gene_variant   180,116 23.658%

Type (alphabetical order)   Count Percent
DOWNSTREAM   180,778 23.858%
EXON   62,701 8.275%
INTERGENIC   45,611 6.02%
INTRON   257,292 33.956%
SPLICE_SITE_ACCEPTOR   252 0.033%
SPLICE_SITE_DONOR   219 0.029%
SPLICE_SITE_REGION   2,688 0.355%
TRANSCRIPT   5 0.001%
UPSTREAM   180,116 23.771%
UTR_3_PRIME   17,977 2.373%
UTR_5_PRIME   10,076 1.33%

Quality: 

	

		
 Min3 

		
 Max228 

		
 Mean29.917 

		
 Median32 

		
 Standard deviation23.975 

		
 Values3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84,85,86,87,88,89,90,91,92,93,94,95,96,97,98,99,100,101,102,103,104,105,106,107,108,109,110,111,112,113,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130,131,132,133,134,135,136,137,138,139,140,141,142,143,144,145,146,147,148,149,150,151,152,153,154,155,156,157,158,159,160,161,162,163,164,165,166,167,168,169,170,171,172,173,174,175,176,177,178,179,180,181,182,183,184,185,186,187,188,189,190,192,193,194,195,196,197,198,199,200,202,203,204,206,208,209,211,212,213,214,216,217,218,219,220,221,222,223,224,225,226,227,228 

		
 Count565,3128,2314,2491,7222,2671,6974,4458,7420,7689,13845,559,559,397,552,587,462,536,1840,542,441,509,517,550,537,602,607,649,677,66745,145,149,164,181,164,212,243,226,301,317,384,304,442,416,490,294,238,175,224,257,300,296,197,202,191,319,249,295,301,505,753,426,672,700,1296,479,226,530,305,562,590,1033,89,82,88,144,110,123,83,189,4785,44,43,47,55,50,70,57,72,442,871,57,23,47,26,40,37,61,47,58,56,60,54,68,102,38,47,137,32,22,26,23,32,24,35,40,27,54,44,50,65,360,30,44,15,11,13,12,17,14,13,9,19,15,10,12,9,8,24,89,39,15,12,14,11,9,7,15,12,12,6,5,7,7,15,4,10,8,4,7,8,6,14,12,1,7,8,4,6,3,6,3,2,6,2,3,6,5,4,4,4,2,4,3,4,3,1,2,2,11,5,4,3,5,3,2,5,2,1,3,1,3,2,4,1,3,4,3,6,3,5,2,7,7,1,3,4,5,2,135
Insertions and deletions length: 

	

		
 Min0 

		
 Max29 

		
 Mean2.14 

		
 Median1 

		
 Standard deviation3.079 

		
 Values0,1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,29 

		
 Count1600,7331,737,557,276,425,264,212,168,129,94,102,60,44,45,32,22,26,11,18,12,13,7,6,2,3,2,1,1
Base changes (SNPs)

  A C G T
A 0 8,730 20,234 11,415
C 8,301 0 6,528 19,941
G 19,788 6,369 0 8,581
T 11,684 20,129 8,719 0

Ts/Tv (transitions / transversions)

Note: Only SNPs are used for this statistic.
Note: This Ts/Tv ratio is a 'raw' ratio (ratio of observed events).

Transitions 132,754
Transversions 115,431
Ts/Tv ratio 1.1501

All variants: 

Sample ,D.melanogaster_sorted.bam,Total
Transitions ,132754,132754
Transversions ,115431,115431
Ts/Tv ,1.150,1.150

Only known variants (i.e. the ones having a non-empty ID field): 

No results available (empty input?)
Allele frequency


Min50
Max100
Mean82.502
Median100
Standard deviation23.848
Values50,100
Count56904,105693

Allele Count


Min1
Max2
Mean1.65
Median2
Standard deviation0.477
Values1,2
Count56904,105693

Hom/Het per sample 




Sample_names , D.melanogaster_sorted.bam
Reference , 0
Het , 56904
Hom , 105693
Missing , 0

Codon changes

How to read this table:
- Rows are reference codons and columns are changed codons. E.g. Row 'AAA' column 'TAA' indicates how many 'AAA' codons have been replaced by 'TAA' codons.
- Red background colors indicate that more changes happened (heat-map).
- Diagonals are indicated using grey background color
- WARNING: This table may include different translation codon tables (e.g. mamalian DNA and mitochondrial DNA).

  - AAA AAC AAG AAT ACA ACC ACG ACT AGA AGC AGG AGT ATA ATC ATG ATT CAA CAC CAG CAT CCA CCC CCG CCT CGA CGC CGG CGT CTA CTC CTG CTT GAA GAC GAG GAT GCA GCC GCG GCT GGA GGC GGG GGT GTA GTC GTG GTT TAA TAC TAG TAT TCA TCC TCG TCT TGA TGC TGG TGT TTA TTC TTG TTT
-   77 41 50 43 23 32 25 52 43 26 2 18 42 26 44 33 78 49 84 35 38 11 18 31 30 29 18 39 10 67 31 28 19 25 23 42 31 27 12 17 35 14 18 22 22 23 26 28 37 16 29 70 33 25 23 48 26 26 9 30 35 46 42 89
AAA 88 172 65 293 110 33       57       64       58                               75                               42                              
AAC 116 130 231 102 330   92   3   134 1   9 78       78                   1           110                             1 68                            
AAG 141 356 88 406 172 6 1 139   7 3 150 5 4 1 144 6 4   159                               156                               94     3                    
AAT 65 116 357 84 224 1     61 3     101   1 3 73 4     77                   2           81                   1           61               1 1     5
ACA 58 49   1   122 147 178 89 69       64     1         23                         2     77                               71                      
ACC 128 2 105 3   169 240 171 174   72   1 1 87               71                   1           70                               93                    
ACG 54 1   23   189 104 156 141     43   2   103               48                               73                     3         72                  
ACT 51 1     29 106 143 115 113       28 4     19     2         27                   1           52                               24                
AGA 16 36       12       35 27 123 18 29           2           43                   1           8                               42       1      
AGC 89 1 76 5 3 4 94 2 1 84 195 77 167   99 3 1                   82                               79               4               118            
AGG 27 2   57       27   103 60 87 46     11                       42                               19                               19          
AGT 54       70 2     42 44 184 29 172       60                       29             4           3     60                               38        
ATA 24 49       50       32       129 59 63 107                         19                               33                               37      
ATC 87   105 1 2 4 98   1   54 11 2 154 225 78 330       1       1           71                               75                               116    
ATG 79     76 3 1   72 2     65 5 88 76 261 72                             77                               44           1           4   1   114  
ATT 61 1   1 96   1   40       77 138 308 101 170                               45                               74                               86
CAA 62 62       2                       196 44 334 51 59     1 51   1   54   1 3 85             2                 49                              
CAC 61   105               1             86 129 69 245   38       84       69       42     1                         52                            
CAG 142 1   160                 1   1     349 158 392 215 2   135 1 1 1 104 10 3   174 1     95   1   2                       128                   1      
CAT 55       41                         51 130 51 118 3     50       27   17   59       35                               65                   2   2
CCA 79         47                       75     5 119 194 239 97 30     1 61               51 2                             89 1                    
CCC 80           72                       71 1 4 93 214 150 288   43     1 74   5       1   54                               105       2            
CCG 75             105                     1 56 17 184 137 179 81   1 52       80               31                               42                  
CCT 41     3         34                       33 111 171 34 54     1 8       39               10                               42 1              
CGA 31 1               39         1     45   5   27       90 96 147 61 14     3                 19 1                             17           1  
CGC 72                   49 1             124   1   62     78 147 99 246   66 2 1                   51                         1     75            
CGG 37                     57           4 1 41 2     16   181 55 54 40     25                       29                               38          
CGT 29             2         24         1     57       28 90 176 57 84     7 26                       25                               45        
CTA 18                         39       29       81       18 2     74 67 314 65                         30                         2     72      
CTC 41               2           67     1 65   4 17 59       32 2   127 124 75 170                           44                               70    
CTG 154   1           1             161   4 1 170 7     179     1 141 1 360 157 410 276                             158                 9         1 1 299  
CTT 56                               30 2     71     15 38       28 69 137 116 116                               41                           2   36
GAA 62 68 1                     12       63                 1             274 101 344 116 78       105       101     3 114                 1         1  
GAC 70   112             5                 80             1             4 140 251 65 315   71 2   1 71       54       79                            
GAG 152 1   195                               127                           425 169 414 174     162   12 1 157 4 4 4 151       212   2                      
GAT 117       212         1 12 8                 85         1         1     169 276 110 337 2     84   2   119     1 109       121   8                    
GCA 71       2 81                               63                       37 1     129 154 180 133 44 4     69   5           52                      
GCC 196           201                 1             130       2             2 94 3   236 356 179 246 1 119       136           4   155       1         1  
GCG 102             67     4                         61                       45 4 192 104 141 97   4 43       80               60                  
GCT 39             2 77             1                 42   2                   58 152 223 114 202   1   52   1 3 73               95                
GGA 64                 80                               71   1         1 106 3     62   5   147 128 125 130 68 1 1 7                 64 1           1
GGC 83                   73                               61 4             96 4     123     169 289 189 222   85           1         9 93 2          
GGG 32                     19                               16               22       18   78 56 46 62     23                       15          
GGT 79                       73                               33             6 109   2   43 115 202 116 152     6 78                       46        
GTA 43                         34                               14       7   1   67       25     1 58 55 142 60                         7      
GTC 67 1                     1   57                             1 43       40   3   54 2 5   60 2 2 83 125 85 142                           36    
GTG 140 1                     10     110                               123       97   2 3 102       93 10 298 203 293 196     1                 2     124  
GTT 39                               75                               56       40       134 1   1 62 109 109 154 106                               42
TAA 4 1                               3                               1                               6   2 4 1       2       4      
TAC 45   59             5                 104               2               58                             40 197 40 169   68   1   67       84    
TAG 8                                     3                               2                             3 2               1          
TAT 58 2     48                               53                               38                 4       48 176 32 71       41       25       45
TCA 28         43                               65     1           2             47                       46 5 2   108 90 136 69 19 4     48 1    
TCC 102           92                   5           87               5               68                       69 2 1 155 220 145 225 1 79     1 47 1 2
TCG 77 4           87                               76                               112                       74   236 107 146 108   2 61     1 91 1
TCT 65               42                               17                               45                       13 57 201 50 53       36   2 1 36
TGA 5                 1                               2                               2               2       1       7 1 2   22      
TGC 28                   47                     1         45                               47             1 78       71     31 119 72 208   60 6  
TGG 42                     58                               34                   1           26       3     1 18       16   37 32 72 42     33  
TGT 17                       17     1                         23     1                         11               19       23 10 163 12 64       22
TTA 1                         12                               62                               24       19       44     1 13       44 15 93 26
TTC 73       5                   78                         6     85                               50       106       70       43   2 96 248 88 365
TTG 74                             77                               255             4                 49     1 65     1 64 5     71 1 169 81 180 42
TTT 40 1                             73                               53                               61       30       34       46 61 245 55 144

Amino acid changes

How to read this table:
- Rows are reference amino acids and columns are changed amino acids. E.g. Row 'A' column 'E' indicates how many 'A' amino acids have been replaced by 'E' amino acids.
- Red background colors indicate that more changes happened (heat-map).
- Diagonals are indicated using grey background color
- WARNING: This table may include different translation codon tables (e.g. mamalian DNA and mitochondrial DNA).

  * - ? A C D E F G H I K L M N P Q R S T V W Y
* 21 17     1   3   2     1 26       6 3 2     3 7
- 92   1,339 87 56 67 42 135 89 84 101 127 213 44 84 98 162 161 173 132 99 9 86
?     1                                        
A   408   2,838 1 157 87   268       1 2 2 296   4 366 428 367   4
C 42 45     554     82 58       7 1   1   68 158     84 97
D   187   159   1,179 484   193 165     5   324     16 20   164   200
E 326 214   240 1 560 1,457   279   12 264 1   1   190 1 2   263    
F   113     91     1,002     151 1 438   5     6 104   111   136
G 73 258   253 140 208 138 1 2,226       1         285 146   269 17 1
H   116   1   77   4   622     145   146 91 257 111 1       117
I   172           202   1 1,620 52 172 242 203 1   43 133 194 182    
K 136 229         231       75 1,227   144 435   221 214 11 179      
L 97 344   4 3     273   148 148   3,832 238 1 389 206 225 124 3 346 71 1
M   79                 236 76 192 261 3     65 6 75 44 4  
N 1 181     1 191   5   155 161 432 3 3 1,142   4 5 235 157 1   129
P 1 275   148 2 1       131   3 260     2,345 132 136 279 258      
Q 177 204   5     180     468 1 223 237     198 1,271 168 1 2      
R 59 212     120   1   152 185 30 96 146 11   133 98 2,231 225 41   57  
S 144 415   272 277   4 90 142   165 10 149 3 149 246   345 2,824 409   61 92
T   291   272   3         178 80 1 103 134 169 2 112 361 2,357     3
V 1 289   369 2 83 105 78 257   166 2 368 110         11   2,218    
W 55 42   1 74       26       33         92 16   3 72 1
Y 160 103     92 96   129   157   2     107     7 110   4   613

Variants by chromosome

		

		4, Position,0,10000,20000,30000,40000,50000,60000,70000,80000,90000,100000,110000,120000,130000,140000,150000,160000,170000,180000,190000,200000,210000,220000,230000,240000,250000,260000,270000,280000,290000,300000,310000,320000,330000,340000,350000,360000,370000,380000,390000,400000,410000,420000,430000,440000,450000,460000,470000,480000,490000,500000,510000,520000,530000,540000,550000,560000,570000,580000,590000,600000,610000,620000,630000,640000,650000,660000,670000,680000,690000,700000,710000,720000,730000,740000,750000,760000,770000,780000,790000,800000,810000,820000,830000,840000,850000,860000,870000,880000,890000,900000,910000,920000,930000,940000,950000,960000,970000,980000,990000,1000000,1010000,1020000,1030000,1040000,1050000,1060000,1070000,1080000,1090000,1100000,1110000,1120000,1130000,1140000,1150000,1160000,1170000,1180000,1190000,1200000,1210000,1220000,1230000,1240000,1250000,1260000,1270000,1280000,1290000,1300000,1310000,1320000,1330000,1340000,1350000
4,Count,6,0,0,0,4,1,16,3,6,1,3,0,2,3,4,3,6,6,5,3,2,2,4,2,4,4,56,5,6,8,6,6,1,5,10,5,7,1,6,2,7,5,1,3,2,2,1,9,1,1,5,8,3,0,6,1,4,4,2,10,1,5,0,0,1,2,0,0,1,3,3,3,7,0,4,0,1,4,4,0,3,2,3,4,1,1,1,1,3,9,4,14,13,1,1,5,2,11,6,2,8,2,5,3,5,6,0,9,1,2,4,0,1,1,3,3,1,1,3,3,0,1,7,9,6,2,0,29,14,12,16,4,0,0,0,0

	
		

		2L, Position,0,100000,200000,300000,400000,500000,600000,700000,800000,900000,1000000,1100000,1200000,1300000,1400000,1500000,1600000,1700000,1800000,1900000,2000000,2100000,2200000,2300000,2400000,2500000,2600000,2700000,2800000,2900000,3000000,3100000,3200000,3300000,3400000,3500000,3600000,3700000,3800000,3900000,4000000,4100000,4200000,4300000,4400000,4500000,4600000,4700000,4800000,4900000,5000000,5100000,5200000,5300000,5400000,5500000,5600000,5700000,5800000,5900000,6000000,6100000,6200000,6300000,6400000,6500000,6600000,6700000,6800000,6900000,7000000,7100000,7200000,7300000,7400000,7500000,7600000,7700000,7800000,7900000,8000000,8100000,8200000,8300000,8400000,8500000,8600000,8700000,8800000,8900000,9000000,9100000,9200000,9300000,9400000,9500000,9600000,9700000,9800000,9900000,10000000,10100000,10200000,10300000,10400000,10500000,10600000,10700000,10800000,10900000,11000000,11100000,11200000,11300000,11400000,11500000,11600000,11700000,11800000,11900000,12000000,12100000,12200000,12300000,12400000,12500000,12600000,12700000,12800000,12900000,13000000,13100000,13200000,13300000,13400000,13500000,13600000,13700000,13800000,13900000,14000000,14100000,14200000,14300000,14400000,14500000,14600000,14700000,14800000,14900000,15000000,15100000,15200000,15300000,15400000,15500000,15600000,15700000,15800000,15900000,16000000,16100000,16200000,16300000,16400000,16500000,16600000,16700000,16800000,16900000,17000000,17100000,17200000,17300000,17400000,17500000,17600000,17700000,17800000,17900000,18000000,18100000,18200000,18300000,18400000,18500000,18600000,18700000,18800000,18900000,19000000,19100000,19200000,19300000,19400000,19500000,19600000,19700000,19800000,19900000,20000000,20100000,20200000,20300000,20400000,20500000,20600000,20700000,20800000,20900000,21000000,21100000,21200000,21300000,21400000,21500000,21600000,21700000,21800000,21900000,22000000,22100000,22200000,22300000,22400000,22500000,22600000,22700000,22800000,22900000,23000000
2L,Count,68,79,111,102,145,225,139,168,170,208,231,146,210,159,208,163,294,203,145,227,181,103,162,187,99,197,156,191,222,152,171,206,209,231,282,252,234,185,198,171,207,212,228,146,236,119,143,195,161,118,7,11,22,13,5,11,3,4,17,245,217,191,210,199,126,198,113,227,191,153,202,204,243,207,300,325,242,284,126,230,227,240,249,224,171,112,132,210,262,313,145,393,213,306,288,225,183,254,210,190,233,195,12,144,245,70,207,151,185,181,116,117,154,227,256,153,73,145,158,172,81,287,178,209,224,204,167,135,133,106,103,146,182,185,209,205,191,112,177,315,137,136,144,156,202,95,97,116,157,163,244,183,197,127,132,105,70,189,213,115,140,157,86,277,215,135,120,202,101,100,83,61,132,155,140,136,79,151,144,97,97,107,108,52,112,120,123,110,153,180,106,129,185,182,126,75,137,114,227,104,139,82,122,108,122,129,186,130,168,167,90,71,76,94,6,24,28,67,108,121,114,73,78,57,34,61,30,34,2,23,135

	
		

		2R, Position,0,100000,200000,300000,400000,500000,600000,700000,800000,900000,1000000,1100000,1200000,1300000,1400000,1500000,1600000,1700000,1800000,1900000,2000000,2100000,2200000,2300000,2400000,2500000,2600000,2700000,2800000,2900000,3000000,3100000,3200000,3300000,3400000,3500000,3600000,3700000,3800000,3900000,4000000,4100000,4200000,4300000,4400000,4500000,4600000,4700000,4800000,4900000,5000000,5100000,5200000,5300000,5400000,5500000,5600000,5700000,5800000,5900000,6000000,6100000,6200000,6300000,6400000,6500000,6600000,6700000,6800000,6900000,7000000,7100000,7200000,7300000,7400000,7500000,7600000,7700000,7800000,7900000,8000000,8100000,8200000,8300000,8400000,8500000,8600000,8700000,8800000,8900000,9000000,9100000,9200000,9300000,9400000,9500000,9600000,9700000,9800000,9900000,10000000,10100000,10200000,10300000,10400000,10500000,10600000,10700000,10800000,10900000,11000000,11100000,11200000,11300000,11400000,11500000,11600000,11700000,11800000,11900000,12000000,12100000,12200000,12300000,12400000,12500000,12600000,12700000,12800000,12900000,13000000,13100000,13200000,13300000,13400000,13500000,13600000,13700000,13800000,13900000,14000000,14100000,14200000,14300000,14400000,14500000,14600000,14700000,14800000,14900000,15000000,15100000,15200000,15300000,15400000,15500000,15600000,15700000,15800000,15900000,16000000,16100000,16200000,16300000,16400000,16500000,16600000,16700000,16800000,16900000,17000000,17100000,17200000,17300000,17400000,17500000,17600000,17700000,17800000,17900000,18000000,18100000,18200000,18300000,18400000,18500000,18600000,18700000,18800000,18900000,19000000,19100000,19200000,19300000,19400000,19500000,19600000,19700000,19800000,19900000,20000000,20100000,20200000,20300000,20400000,20500000,20600000,20700000,20800000,20900000,21000000,21100000
2R,Count,29,5,0,5,13,20,9,15,18,17,17,13,33,17,17,11,12,18,12,13,6,16,4,10,1,13,9,22,9,10,17,28,16,2,10,16,3,8,5,12,14,29,47,28,14,27,35,26,57,89,95,90,78,106,114,53,31,111,81,63,50,119,215,75,59,126,60,123,100,95,112,73,102,116,65,93,123,104,62,83,103,127,152,90,117,106,110,102,70,92,142,79,134,140,153,73,121,148,113,160,131,177,292,217,208,176,173,154,184,174,151,194,128,130,138,188,170,166,158,146,223,128,252,222,276,192,208,165,140,212,165,116,143,271,283,282,155,186,241,197,205,144,41,211,186,179,204,203,169,248,159,206,125,169,155,162,123,190,198,208,200,189,257,220,212,220,174,189,147,258,122,222,161,174,128,108,165,183,209,221,141,22,5,1,4,86,229,262,151,158,218,145,157,167,147,180,174,55,195,147,184,199,231,238,184,193,178,179,224,193,263,226

	
		

		3L, Position,0,100000,200000,300000,400000,500000,600000,700000,800000,900000,1000000,1100000,1200000,1300000,1400000,1500000,1600000,1700000,1800000,1900000,2000000,2100000,2200000,2300000,2400000,2500000,2600000,2700000,2800000,2900000,3000000,3100000,3200000,3300000,3400000,3500000,3600000,3700000,3800000,3900000,4000000,4100000,4200000,4300000,4400000,4500000,4600000,4700000,4800000,4900000,5000000,5100000,5200000,5300000,5400000,5500000,5600000,5700000,5800000,5900000,6000000,6100000,6200000,6300000,6400000,6500000,6600000,6700000,6800000,6900000,7000000,7100000,7200000,7300000,7400000,7500000,7600000,7700000,7800000,7900000,8000000,8100000,8200000,8300000,8400000,8500000,8600000,8700000,8800000,8900000,9000000,9100000,9200000,9300000,9400000,9500000,9600000,9700000,9800000,9900000,10000000,10100000,10200000,10300000,10400000,10500000,10600000,10700000,10800000,10900000,11000000,11100000,11200000,11300000,11400000,11500000,11600000,11700000,11800000,11900000,12000000,12100000,12200000,12300000,12400000,12500000,12600000,12700000,12800000,12900000,13000000,13100000,13200000,13300000,13400000,13500000,13600000,13700000,13800000,13900000,14000000,14100000,14200000,14300000,14400000,14500000,14600000,14700000,14800000,14900000,15000000,15100000,15200000,15300000,15400000,15500000,15600000,15700000,15800000,15900000,16000000,16100000,16200000,16300000,16400000,16500000,16600000,16700000,16800000,16900000,17000000,17100000,17200000,17300000,17400000,17500000,17600000,17700000,17800000,17900000,18000000,18100000,18200000,18300000,18400000,18500000,18600000,18700000,18800000,18900000,19000000,19100000,19200000,19300000,19400000,19500000,19600000,19700000,19800000,19900000,20000000,20100000,20200000,20300000,20400000,20500000,20600000,20700000,20800000,20900000,21000000,21100000,21200000,21300000,21400000,21500000,21600000,21700000,21800000,21900000,22000000,22100000,22200000,22300000,22400000,22500000,22600000,22700000,22800000,22900000,23000000,23100000,23200000,23300000,23400000,23500000,23600000,23700000,23800000,23900000,24000000,24100000,24200000,24300000,24400000,24500000
3L,Count,11,32,60,111,212,173,218,202,154,223,222,164,232,215,230,197,255,164,215,239,196,245,272,182,299,282,223,165,221,188,219,174,137,118,205,286,183,281,265,195,315,114,104,186,107,159,205,231,118,218,80,193,143,249,245,197,248,196,208,119,171,114,104,8,11,175,170,232,225,197,228,146,183,127,174,133,141,205,219,189,32,23,20,15,79,186,174,195,198,123,252,160,204,141,93,176,212,143,178,229,207,172,240,196,222,169,288,261,172,299,137,258,233,239,317,185,285,181,215,148,321,165,238,177,181,162,206,182,229,211,113,197,175,240,167,86,136,113,137,270,218,179,184,224,190,296,169,87,134,197,219,225,258,179,139,69,177,183,94,96,161,101,173,163,119,131,112,187,223,134,109,127,96,98,102,159,127,112,102,87,258,192,251,224,161,124,145,170,173,182,135,93,100,121,161,100,140,42,54,83,87,78,63,80,80,48,54,78,71,96,64,99,42,55,57,40,76,59,63,88,48,52,53,61,96,59,58,46,56,63,26,23,28,26,29,12,19,35,37,29,32,49,19,26,7,52

	
		

		3R, Position,0,100000,200000,300000,400000,500000,600000,700000,800000,900000,1000000,1100000,1200000,1300000,1400000,1500000,1600000,1700000,1800000,1900000,2000000,2100000,2200000,2300000,2400000,2500000,2600000,2700000,2800000,2900000,3000000,3100000,3200000,3300000,3400000,3500000,3600000,3700000,3800000,3900000,4000000,4100000,4200000,4300000,4400000,4500000,4600000,4700000,4800000,4900000,5000000,5100000,5200000,5300000,5400000,5500000,5600000,5700000,5800000,5900000,6000000,6100000,6200000,6300000,6400000,6500000,6600000,6700000,6800000,6900000,7000000,7100000,7200000,7300000,7400000,7500000,7600000,7700000,7800000,7900000,8000000,8100000,8200000,8300000,8400000,8500000,8600000,8700000,8800000,8900000,9000000,9100000,9200000,9300000,9400000,9500000,9600000,9700000,9800000,9900000,10000000,10100000,10200000,10300000,10400000,10500000,10600000,10700000,10800000,10900000,11000000,11100000,11200000,11300000,11400000,11500000,11600000,11700000,11800000,11900000,12000000,12100000,12200000,12300000,12400000,12500000,12600000,12700000,12800000,12900000,13000000,13100000,13200000,13300000,13400000,13500000,13600000,13700000,13800000,13900000,14000000,14100000,14200000,14300000,14400000,14500000,14600000,14700000,14800000,14900000,15000000,15100000,15200000,15300000,15400000,15500000,15600000,15700000,15800000,15900000,16000000,16100000,16200000,16300000,16400000,16500000,16600000,16700000,16800000,16900000,17000000,17100000,17200000,17300000,17400000,17500000,17600000,17700000,17800000,17900000,18000000,18100000,18200000,18300000,18400000,18500000,18600000,18700000,18800000,18900000,19000000,19100000,19200000,19300000,19400000,19500000,19600000,19700000,19800000,19900000,20000000,20100000,20200000,20300000,20400000,20500000,20600000,20700000,20800000,20900000,21000000,21100000,21200000,21300000,21400000,21500000,21600000,21700000,21800000,21900000,22000000,22100000,22200000,22300000,22400000,22500000,22600000,22700000,22800000,22900000,23000000,23100000,23200000,23300000,23400000,23500000,23600000,23700000,23800000,23900000,24000000,24100000,24200000,24300000,24400000,24500000,24600000,24700000,24800000,24900000,25000000,25100000,25200000,25300000,25400000,25500000,25600000,25700000,25800000,25900000,26000000,26100000,26200000,26300000,26400000,26500000,26600000,26700000,26800000,26900000,27000000,27100000,27200000,27300000,27400000,27500000,27600000,27700000,27800000,27900000
3R,Count,85,108,62,41,20,26,20,19,8,22,7,45,25,11,44,3,6,5,13,22,8,22,40,30,57,62,20,20,15,27,37,11,14,27,6,19,35,11,12,52,20,11,24,23,40,68,72,37,33,81,79,51,49,49,65,20,20,22,28,24,46,63,13,62,53,45,42,93,78,83,87,96,100,48,94,93,82,23,10,27,18,11,9,6,32,92,73,123,109,52,6,13,17,24,60,71,88,25,76,79,78,110,77,56,94,112,117,86,70,99,104,197,127,71,43,72,125,66,72,124,131,64,146,108,53,130,81,113,132,180,152,108,132,214,220,168,113,209,263,160,197,136,166,117,180,153,148,172,125,143,155,216,92,96,167,53,143,82,134,104,75,152,159,107,173,109,97,135,111,127,191,166,166,166,182,38,214,146,147,187,220,135,12,207,140,178,143,202,174,218,191,185,200,204,184,148,138,85,112,183,205,124,191,159,108,44,7,18,77,136,92,311,146,159,220,202,53,184,272,167,225,179,144,143,206,141,178,172,159,149,137,100,59,62,91,173,161,163,129,163,191,8,5,18,21,109,27,67,150,55,11,202,232,108,72,142,86,110,118,111,13,186,152,129,155,132,220,129,146,233,201,185,116,25,133,167,177,147,97,136

	
		

		X, Position,0,100000,200000,300000,400000,500000,600000,700000,800000,900000,1000000,1100000,1200000,1300000,1400000,1500000,1600000,1700000,1800000,1900000,2000000,2100000,2200000,2300000,2400000,2500000,2600000,2700000,2800000,2900000,3000000,3100000,3200000,3300000,3400000,3500000,3600000,3700000,3800000,3900000,4000000,4100000,4200000,4300000,4400000,4500000,4600000,4700000,4800000,4900000,5000000,5100000,5200000,5300000,5400000,5500000,5600000,5700000,5800000,5900000,6000000,6100000,6200000,6300000,6400000,6500000,6600000,6700000,6800000,6900000,7000000,7100000,7200000,7300000,7400000,7500000,7600000,7700000,7800000,7900000,8000000,8100000,8200000,8300000,8400000,8500000,8600000,8700000,8800000,8900000,9000000,9100000,9200000,9300000,9400000,9500000,9600000,9700000,9800000,9900000,10000000,10100000,10200000,10300000,10400000,10500000,10600000,10700000,10800000,10900000,11000000,11100000,11200000,11300000,11400000,11500000,11600000,11700000,11800000,11900000,12000000,12100000,12200000,12300000,12400000,12500000,12600000,12700000,12800000,12900000,13000000,13100000,13200000,13300000,13400000,13500000,13600000,13700000,13800000,13900000,14000000,14100000,14200000,14300000,14400000,14500000,14600000,14700000,14800000,14900000,15000000,15100000,15200000,15300000,15400000,15500000,15600000,15700000,15800000,15900000,16000000,16100000,16200000,16300000,16400000,16500000,16600000,16700000,16800000,16900000,17000000,17100000,17200000,17300000,17400000,17500000,17600000,17700000,17800000,17900000,18000000,18100000,18200000,18300000,18400000,18500000,18600000,18700000,18800000,18900000,19000000,19100000,19200000,19300000,19400000,19500000,19600000,19700000,19800000,19900000,20000000,20100000,20200000,20300000,20400000,20500000,20600000,20700000,20800000,20900000,21000000,21100000,21200000,21300000,21400000,21500000,21600000,21700000,21800000,21900000,22000000,22100000,22200000,22300000,22400000
X,Count,90,33,13,14,14,16,8,12,46,24,46,28,27,15,41,28,40,57,26,28,44,31,48,102,104,118,153,143,79,90,85,130,94,187,122,104,60,44,90,91,148,103,105,141,96,129,115,115,133,116,99,128,84,107,141,193,135,103,149,134,123,106,139,137,103,190,213,217,210,171,86,69,9,2,6,5,3,6,73,52,132,126,157,136,79,122,146,139,142,133,178,101,138,147,74,179,134,169,162,115,104,150,151,134,103,81,9,62,67,112,105,134,163,106,96,25,47,79,154,97,104,84,153,106,172,109,130,137,111,122,122,128,77,124,106,154,89,106,84,115,134,152,86,106,148,92,122,86,144,185,112,50,122,103,103,163,153,94,65,68,71,161,167,129,106,133,113,184,151,148,151,88,116,152,122,65,75,71,59,59,52,126,98,104,92,178,76,138,93,97,95,148,106,100,85,140,63,112,89,71,79,79,35,133,142,111,140,64,97,148,12,5,8,9,3,8,3,17,26,7,9,2,28,126,27

	
		

		Y, Position,0,1
Y,Count,0,0
Details by gene

Here you can find a tab-separated table.