Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,974,119 |
C→T |
64.0% |
T140T (ACC→ACT) |
metK → |
methionine adenosyltransferase 1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,974,119 | 0 | C | T | 64.0%
| 35.4
/ 35.5
| 61 | T140T (ACC→ACT) | metK | methionine adenosyltransferase 1 |
| Reads supporting (aligned to +/- strand): ref base C (12/10); new base T (25/14); total (37/24) |
| Fisher's exact test for biased strand distribution p-value = 5.87e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
ACCAGGGTCTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGCCGTGGCTGCGC > minE/1974055‑1974185
|
aCCAGGGTCTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACCTATg < 1:1730067/69‑1 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCCGCACCTATCACTTATGCacac > 1:1018211/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGcaca > 1:236908/4‑68 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:1628525/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:2267860/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:675385/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:2067339/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:577321/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:677312/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:518223/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:1797467/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:2388598/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:168460/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:2509684/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:348056/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:812040/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:1477016/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:1346323/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:3431204/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:127051/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:1264759/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:1191973/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:3036823/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:3106337/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:3118770/4‑69 (MQ=255)
gggcTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACTTATGCacac > 1:3196129/4‑69 (MQ=255)
gTCTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACCTATg < 1:1317703/63‑1 (MQ=255)
gTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTgg < 1:1933265/68‑1 (MQ=255)
aaaCCGACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTg > 1:2051236/1‑68 (MQ=255)
aaaCCGACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTg > 1:2751071/1‑68 (MQ=255)
aaaCCGACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTg > 1:1175665/1‑68 (MQ=255)
aaaCCGACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTg > 1:698513/1‑68 (MQ=255)
gACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTGTTACAGCGTCAGGCTGAAGTGCGTaaa < 1:1892288/69‑1 (MQ=255)
gACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTaaa < 1:2201153/69‑1 (MQ=255)
gACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTaaa < 1:3381188/69‑1 (MQ=255)
gACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTaaa < 1:1229350/69‑1 (MQ=255)
gACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTaaa > 1:3382280/1‑69 (MQ=255)
gACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTaaa < 1:897671/69‑1 (MQ=255)
gACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTaaa < 1:1640693/69‑1 (MQ=255)
gACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTaaa < 1:1847896/69‑1 (MQ=255)
gACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTaaa > 1:2130204/1‑69 (MQ=255)
cTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGt > 1:2653797/1‑45 (MQ=255)
cTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGc > 1:1595702/1‑69 (MQ=255)
cTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGc > 1:2875436/1‑69 (MQ=255)
cTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGc > 1:2134290/1‑69 (MQ=255)
cTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGc > 1:111870/1‑69 (MQ=255)
cTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGc > 1:105660/1‑69 (MQ=255)
aGCACCTATCACTTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGc < 1:407663/68‑1 (MQ=255)
aGCACCTATCACTTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGc < 1:710704/68‑1 (MQ=255)
aGCACCTATCACTTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGc < 1:2341074/68‑1 (MQ=255)
aGCACCTATCACTTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGc < 1:3304554/68‑1 (MQ=255)
aGCACCTATCACTTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGc < 1:90732/68‑1 (MQ=255)
aGCACCTATCACTTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGc < 1:1037600/68‑1 (MQ=255)
aGCACCTATCACTTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGc < 1:287378/68‑1 (MQ=255)
aGCACCTATCACTTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGc < 1:2660799/68‑1 (MQ=255)
aGCACCTATCACTTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGc < 1:2592136/68‑1 (MQ=255)
aGCACCTATCACTTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGc < 1:2555529/68‑1 (MQ=255)
aGCACCTATCACTTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGc < 1:2293269/68‑1 (MQ=255)
aGCACCTATCACTTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGc < 1:3226219/68‑1 (MQ=255)
aGCACCTATCACTTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGc < 1:2092897/68‑1 (MQ=255)
aGCACCTATCACTTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGc < 1:1986149/68‑1 (MQ=255)
tcacctatGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGCCGTGGCTgc > 1:1754579/1‑69 (MQ=255)
acctatGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGCCGTGGCTtcg > 1:2301426/1‑68 (MQ=255)
acctatGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGCCGTGGCTgcgc > 1:622164/1‑69 (MQ=255)
acctatGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGCCGTGGCTgcgc > 1:1307841/1‑69 (MQ=255)
acctatGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGCCGTGGCTgcgc > 1:1576733/1‑69 (MQ=255)
acctatGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGCCGTGGCTgcgc > 1:780191/1‑69 (MQ=255)
acctatGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGCCGTGGCTgcgc > 1:2512282/1‑69 (MQ=255)
acctatGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGCCGTGGCTgcgc > 1:3030382/1‑69 (MQ=255)
acctatGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGCCGTGGCTgcg > 1:1905706/1‑68 (MQ=255)
|
ACCAGGGTCTGATGTTTGGCTACGCAACTAATGAAACCGACGTGCTGATGCCAGCACCTATCACCTATGCACACCGTCTGGTACAGCGTCAGGCTGAAGTGCGTAAAAACGGCACTCTGCCGTGGCTGCGC > minE/1974055‑1974185
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
