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 |
891,127 |
T→C |
37.3% |
G154G (GGA→GGG) |
sapF ← |
predicted antimicrobial peptide transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 891,127 | 0 | T | C | 37.3%
| 28.9
/ 36.1
| 59 | G154G (GGA→GGG) | sapF | predicted antimicrobial peptide transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (15/22); new base C (5/17); total (20/39) |
| Fisher's exact test for biased strand distribution p-value = 2.55e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.97e-01 |
TTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGTAACTGACGTGATCCGGTAGCAGCCCAACCATACGCAT > minE/891061‑891189
|
ttCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGccc < 1:1078189/69‑1 (MQ=255)
ttCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGccc < 1:1829871/69‑1 (MQ=255)
ttCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGccc < 1:1444968/69‑1 (MQ=255)
ttCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGccc < 1:2655185/69‑1 (MQ=255)
ttCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGccc < 1:1358428/69‑1 (MQ=255)
ttCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGccc < 1:1082078/69‑1 (MQ=255)
ataatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACGCAGACGCTGTTTTTGCCCGGGTGCTAAc < 1:1759805/69‑1 (MQ=255)
ataatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGCCCGGGTGCTAAc < 1:691947/69‑1 (MQ=255)
ataatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGCCCGGGTGCTAAc < 1:528612/69‑1 (MQ=255)
ataatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGCCCGGGTGCTAAc < 1:3199875/69‑1 (MQ=255)
ataatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGCCCGGGTGCTAAc < 1:202248/69‑1 (MQ=255)
ataatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGCCCGGGTGCTAAc < 1:1009602/69‑1 (MQ=255)
ataatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGCCCGGGTGCTAAc < 1:1120834/69‑1 (MQ=255)
ataatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGCCCGGGTGCTAAc < 1:2624491/69‑1 (MQ=255)
ataatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGCCCGGGTGCTAAc < 1:2393781/69‑1 (MQ=255)
ataatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACACAGACGCTGTTTTTGCCCGGGTGCTAAc < 1:2785350/69‑1 (MQ=255)
taatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACa < 1:654236/69‑1 (MQ=255)
taatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACa < 1:144028/69‑1 (MQ=255)
taatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACa < 1:135431/69‑1 (MQ=255)
taatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACa < 1:1338967/69‑1 (MQ=255)
taatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGCCCGGGTGCTAAc < 1:1887612/68‑1 (MQ=255)
aatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACat > 1:2446006/1‑69 (MQ=255)
aatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACat > 1:2513947/1‑69 (MQ=255)
aatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACat > 1:84543/1‑69 (MQ=255)
aatGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACat > 1:1218344/1‑69 (MQ=255)
aatGACTTTTGGGCCCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACat > 1:3319989/1‑69 (MQ=255)
atGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACata < 1:1908445/69‑1 (MQ=255)
atGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACata < 1:534694/69‑1 (MQ=255)
atGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACata > 1:1397968/1‑69 (MQ=255)
atGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACat > 1:1169067/1‑68 (MQ=255)
tttGGGCGCAATATCAGCTCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGa < 1:3244083/69‑1 (MQ=255)
tttGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGa < 1:1308071/69‑1 (MQ=255)
tttGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGa < 1:749808/69‑1 (MQ=255)
tttGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGa < 1:1173222/69‑1 (MQ=255)
tttGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGa < 1:3207814/69‑1 (MQ=255)
tttGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGa < 1:1331132/69‑1 (MQ=255)
tttGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGa < 1:1992712/69‑1 (MQ=255)
gcgcAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGt < 1:1492844/68‑1 (MQ=255)
gcgcAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGt < 1:2103818/68‑1 (MQ=255)
cAATATCGGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGTAACt < 1:578571/69‑1 (MQ=255)
cAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGTAACt < 1:1224908/69‑1 (MQ=255)
cAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGTAACt < 1:2457419/69‑1 (MQ=255)
atatCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGTAACTGa > 1:3092266/1‑69 (MQ=255)
atatCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGTAACTGa > 1:1633100/1‑69 (MQ=255)
atatCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGTAACTGa > 1:514984/1‑69 (MQ=255)
atatCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGTAACTGa > 1:3307869/1‑69 (MQ=255)
tCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGTAACTGACGt > 1:1841128/1‑69 (MQ=255)
tCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGTAACTGACGt > 1:711889/1‑69 (MQ=255)
tCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGTAACTGACGt > 1:3093324/1‑69 (MQ=255)
tCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGTAACTGACGt > 1:2151661/1‑69 (MQ=255)
cgcgcgcgcCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACata < 1:41012/46‑1 (MQ=255)
cgcgcgcgcCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGa < 1:2956091/52‑1 (MQ=255)
ccagacccagacGCTGTTTTTGCCCGGGTGCTAACATATGCGGATAGTAACTGACGTGATCCGGTagca < 1:1665104/69‑1 (MQ=255)
ccagacccagacGCTGTTTTTGCCCGGGTGCTAACATATGCGGATAGTAACTGACGTGATCCGGTagca < 1:76054/69‑1 (MQ=255)
ccagacccagacGCTGTTTTTGCCCGGGGGCTAACATATGCGGATAGTAACTGACGTGATCCGGTagca < 1:1390962/69‑1 (MQ=255)
cagacccagacGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGTAACTGACGTGATCCGGTagcag < 1:528389/69‑1 (MQ=255)
cagacccagacGCTGTTTTTGCCCGGGTGCTAACATATGCGGATAGTAACTGACGTGATCCGGTagca < 1:1880784/68‑1 (MQ=255)
cagacccagacGCTGTTTTTGCCCGGGTGCTAACATATGCGGATAGTAACTGACGTGATCCGGTagca < 1:3028326/68‑1 (MQ=255)
acGCTGTTTTTGCCCGGGTGCTAACATATGCGGATAGTAACTGACGTGATCCGGTagca < 1:795635/59‑1 (MQ=255)
gTTTTTGTCCGGGTGCCAACATATGCGGATAGTAACTGACGTGATCCGGTagcag < 1:421891/55‑1 (MQ=255)
tttttGCCCGGGTGCTAACATATGCGGATAGTAACTGACGTGATCCGGTAGCAGCCCAACCATACGCa > 1:466426/1‑68 (MQ=255)
tttttGCCCGGGTGCTAACATATGCGGATAGTAACTGACGTGATCCGGTAGCAGCCCAACCATACGCAt > 1:3260738/1‑69 (MQ=255)
tttttGCCCGGGTGCTAACATATGCGGATAGTAACTGACGTGATCCGGTAGCAGCCCAACCATACGCAt > 1:2201290/1‑69 (MQ=255)
tttttGCCCGGGTGCTAACATATGCGGATAGTAACTGACGTGATCCGGTAGCAGCCCAACCATACGCAt > 1:13751/1‑69 (MQ=255)
tttttGCCAGGGTGCTAACATATGCGGATAGTAACTGACGTGATCCGGTAGCAGCCCAACCATACGCAt > 1:2049549/1‑69 (MQ=255)
|
TTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCAGACGCTGTTTTTGTCCGGGTGCCAACATATGCGGATAGTAACTGACGTGATCCGGTAGCAGCCCAACCATACGCAT > minE/891061‑891189
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
