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 |
|
A5 F28 I1 R2
|
164 |
48.3 |
4710601 |
85.3% |
4018142 |
55.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,563,589 |
T→A |
K207M (AAG→ATG) |
iadA ← |
isoaspartyl dipeptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,563,589 | 0 | T | A | 81.8%
| 128.4
/ 23.8
| 55 | K207M (AAG→ATG) | iadA | isoaspartyl dipeptidase |
| Reads supporting (aligned to +/- strand): ref base T (10/0); new base A (30/15); total (40/15) |
| Fisher's exact test for biased strand distribution p-value = 4.70e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.68e-01 |
CTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCTTTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAA > W3110S.gb/4563534‑4563641
|
cTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTAc < 1:105208/62‑1 (MQ=255)
cTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTAc < 1:4316143/62‑1 (MQ=255)
cTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTAc < 1:4191955/62‑1 (MQ=255)
cTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTAc < 1:2333384/62‑1 (MQ=255)
tGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTc < 1:3038488/61‑1 (MQ=255)
cGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCa > 1:2835677/1‑62 (MQ=255)
cGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCa < 1:732539/62‑1 (MQ=255)
cGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCa < 1:4247735/62‑1 (MQ=255)
cGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCa > 1:3998207/1‑62 (MQ=255)
cGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCa > 1:3329145/1‑62 (MQ=255)
cGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCa > 1:2768431/1‑62 (MQ=255)
cGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCa > 1:2248980/1‑62 (MQ=255)
cGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCa > 1:2159017/1‑62 (MQ=255)
cGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCa > 1:1525365/1‑62 (MQ=255)
ttCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTAc < 1:4055307/38‑1 (MQ=255)
agcagGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGc < 1:2368863/61‑1 (MQ=255)
agcagGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGc < 1:3765462/61‑1 (MQ=255)
agGTCATAAATAGGCTGTAACGCCATTTTACTGTCGcc > 1:205974/1‑38 (MQ=255)
agGTCATAAATAGGCTGTAACGCCATTTTACTGTCGcc > 1:835537/1‑38 (MQ=255)
agGTCATAAATAGGCTGTAACGCCATTTTACTGTCGcc > 1:1386022/1‑38 (MQ=255)
agGTCATAAATAGGCTGTAACGCCATTTTACTGTCGcc > 1:3472815/1‑38 (MQ=255)
agGTCATAAATAGGCTGTAACGCCATTTTACTGTCGcc > 1:3395387/1‑38 (MQ=255)
agGTCATAAATAGGCTGTAACGCCATTTTACTGTCGcc > 1:2890439/1‑38 (MQ=255)
aaTAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGc < 1:2177401/50‑1 (MQ=255)
aaTAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGc < 1:718266/50‑1 (MQ=255)
aaTAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGc < 1:1208070/50‑1 (MQ=255)
aaTAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGc < 1:3857492/50‑1 (MQ=255)
aaTAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGc < 1:298953/50‑1 (MQ=255)
tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAac > 1:1855047/1‑38 (MQ=255)
tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAac > 1:1219067/1‑38 (MQ=255)
tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAac > 1:250853/1‑38 (MQ=255)
tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAac > 1:3774844/1‑38 (MQ=255)
tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAac > 1:3720817/1‑38 (MQ=255)
tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAac > 1:3715609/1‑38 (MQ=255)
tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAac > 1:2763844/1‑38 (MQ=255)
tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAac > 1:3406661/1‑38 (MQ=255)
tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAac > 1:4561713/1‑38 (MQ=255)
tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAac > 1:3386818/1‑38 (MQ=255)
tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAac > 1:2817820/1‑38 (MQ=255)
aGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTAccgccg > 1:2536957/1‑61 (MQ=255)
aGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTAccgccg > 1:1130156/1‑61 (MQ=255)
aGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTAccgccg > 1:2449688/1‑61 (MQ=255)
aGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTAccgccg > 1:4486917/1‑61 (MQ=255)
gCTGTAACGCCTTTTTGCTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGa > 1:1854455/1‑60 (MQ=255)
gCTGTAACGCCTTTTTGCTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAg > 1:4561203/1‑61 (MQ=255)
gCTGTAACGCCTTTTTGCTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAg > 1:935550/1‑61 (MQ=255)
gCTGTAACGCCTTTTTGCTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAg > 1:4328161/1‑61 (MQ=255)
gCTGTAACGCCTTTTTGCTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAg > 1:2348520/1‑61 (MQ=255)
gCTGTAACGCCTTTTTGCTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAg > 1:131734/1‑61 (MQ=255)
gCTGTAACGCCTTTTTGCTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAg > 1:2442086/1‑61 (MQ=255)
gCTGTAACGCCTTTTTGCTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAg > 1:178707/1‑61 (MQ=255)
gCTGTAACGCCTTTTTGCTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAg > 1:3292467/1‑61 (MQ=255)
gCTGTAACGCCTTTTTGCTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAg > 1:1737214/1‑61 (MQ=255)
tGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCaa > 1:283309/1‑62 (MQ=255)
tGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCaa > 1:1011466/1‑62 (MQ=255)
|
CTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCTTTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAA > W3110S.gb/4563534‑4563641
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
