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 |
2,195,634 |
C→T |
44.7% |
S54S (AGC→AGT) |
yhcB → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,195,634 | 0 | C | T | 44.7%
| 13.9
/ 51.3
| 67 | S54S (AGC→AGT) | yhcB | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (26/11); new base T (18/12); total (44/23) |
| Fisher's exact test for biased strand distribution p-value = 4.43e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGGCGTTGCAGTACGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTGGATACCATGGCGCACGACTATCGCCAGCTG > minE/2195566‑2195691
|
cAGGCGTTGCAGTACGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGc < 1:1000500/69‑1 (MQ=255)
cAGGCGTTGCAGTACGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGc < 1:2226125/69‑1 (MQ=255)
cAGGCGTTGCAGTACGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGc < 1:653791/69‑1 (MQ=255)
cAGGCGTTGCAGTACGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGc < 1:1413794/69‑1 (MQ=255)
cAGGCGTTGCAGTACGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGc < 1:1486295/69‑1 (MQ=255)
gTTGCAGTACGAACTGGAAAAGAATAAAGCTTAACTGGACGAGTATCGCGAAGAGCTGGTTAGc < 1:545364/64‑1 (MQ=255)
gTTGCAGTACGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGc < 1:1421500/64‑1 (MQ=255)
aGTACGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc < 1:2407541/68‑1 (MQ=255)
aGTACGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc < 1:1700322/68‑1 (MQ=255)
aGTACGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGAGAAGAGCTGGTTAGTCACTTTGcc < 1:1756453/68‑1 (MQ=255)
aGTACGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGAGAAGAGCTGGTTAGTCACTTTGcc < 1:2348877/68‑1 (MQ=255)
aGTACGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGAGAAGAGCTGGTTAGTCACTTTGcc < 1:631188/68‑1 (MQ=255)
aGTACGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGAGAAGAGCTGGTTAGTCACTTTGcc < 1:1595003/68‑1 (MQ=255)
tACGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGc > 1:1634258/1‑69 (MQ=255)
ggAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:2948903/2‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:451518/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:2564900/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:2459618/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:910741/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:2333778/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:231581/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:3194591/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:2119223/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:207255/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:1447922/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:1176385/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:57659/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:1246993/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:1253718/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:885111/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:732906/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGcc > 1:1815278/1‑64 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCa > 1:871168/1‑68 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAg > 1:170591/1‑69 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAg > 1:1488576/1‑69 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAg > 1:1589514/1‑69 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAg > 1:162584/1‑69 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAg > 1:2888550/1‑69 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAg > 1:1169130/1‑69 (MQ=255)
cGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAg > 1:3251321/1‑69 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAATAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTAc > 1:1051717/1‑68 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGCCCGCAGCGCGGAATTACt < 1:1042365/69‑1 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGCCCGCAGCGCGGAATTACt < 1:3395987/69‑1 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGCCCGCAGCGCGGAATTACt < 1:2708417/69‑1 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGCCCGCAGCGCGGAATTACt < 1:2633977/69‑1 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGCCCGCAGCGCGGAATTACt < 1:630983/69‑1 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGTCACTTTGCCCGCAGCGCGGAATTACt < 1:1960211/69‑1 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCGGCAGCGCGGAATTAc > 1:897261/1‑68 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTAc > 1:2551571/1‑68 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTAc > 1:2505155/1‑68 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTAc > 1:2865195/1‑68 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTAc > 1:1737279/1‑68 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTAc > 1:3125913/1‑68 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTAc > 1:224605/1‑68 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTAc > 1:1785965/1‑68 (MQ=255)
gAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTAc > 1:3276813/1‑68 (MQ=255)
aaTAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTg < 1:2643466/69‑1 (MQ=255)
aaTAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTg < 1:1121183/69‑1 (MQ=255)
aaTAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTg < 1:1289471/69‑1 (MQ=255)
aaTAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTg < 1:178584/69‑1 (MQ=255)
aaTAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTg < 1:2981650/69‑1 (MQ=255)
aaGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAAt < 1:53847/60‑1 (MQ=255)
aGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGc < 1:2313176/37‑1 (MQ=255)
gCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTGGATAc < 1:1842855/68‑1 (MQ=255)
aaCTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTg < 1:684967/59‑1 (MQ=255)
cGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTGGATACCATGGCGCAc < 1:17095/67‑1 (MQ=255)
cGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTGGATACCATGGCGCAc < 1:1352341/67‑1 (MQ=255)
tCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTGGATACCATGGCGCACGACTa > 1:498572/1‑66 (MQ=255)
tCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTGGATACCATGGCGCACGACTa > 1:1841636/1‑66 (MQ=255)
tCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTGGATACCATGGCGCACGACTa > 1:3007550/1‑66 (MQ=255)
gagCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTGGATACCATGGCGCACGACTATCGCCAGCt > 1:2887355/1‑68 (MQ=255)
gagCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTGGATACCATGGCGCACGACTATCGCCAGCTg > 1:187313/1‑69 (MQ=255)
gagCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTGGATACCATGGCGCACGACTATCGCCAGCTg > 1:607079/1‑69 (MQ=255)
gagCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTGGATACCATGGCGCACGACTATCGCCAGCTg > 1:2285651/1‑69 (MQ=255)
agCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTg < 1:1971536/38‑1 (MQ=255)
|
CAGGCGTTGCAGTACGAACTGGAAAAGAATAAAGCTGAACTGGACGAGTATCGCGAAGAGCTGGTTAGCCACTTTGCCCGCAGCGCGGAATTACTGGATACCATGGCGCACGACTATCGCCAGCTG > minE/2195566‑2195691
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
