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 |
1,629,040 |
G→T |
49.3% |
R2R (CGC→CGA) |
ypfG ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,629,040 | 0 | G | T | 49.3%
| 9.6
/ 83.0
| 75 | R2R (CGC→CGA) | ypfG | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (32/6); new base T (24/13); total (56/19) |
| Fisher's exact test for biased strand distribution p-value = 6.67e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCTGGTGCCGCCCACACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTCAAACAAACAGCAC > minE/1628975‑1629081
|
gcTGGTGCCGCCCACACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAgcg < 1:13044/68‑1 (MQ=255)
tGGTGCCGCCCACACCAAAGACGTCGGCAACAAAGCG‑AAAAAAAGAGAAGGAAAATGCGATAGCGCATg < 1:596254/69‑1 (MQ=255)
ggTGCCGCCCACACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATg < 1:1288560/69‑1 (MQ=255)
ggTGCCGCCCACACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATg < 1:3250872/69‑1 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACgc > 1:449204/1‑68 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:29625/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:1907371/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:3102749/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:873835/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:1983485/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:892829/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:3035912/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:3102940/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:2882371/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:2832538/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:2505191/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:2725065/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:2717076/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:3197360/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:1109099/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:1142622/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:470750/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:985774/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:1382878/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:833812/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:3379347/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:1605384/1‑69 (MQ=255)
acacCAAAGACATCGGCAACAAAACGAAAAAAAAGAGAAGGAAAATGCGATATCGCATGGACGGTACGa > 1:3227228/1‑69 (MQ=255)
aaaGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGAcccc > 1:2974952/1‑68 (MQ=255)
aaaGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGAcccc > 1:3386579/1‑68 (MQ=255)
aaaGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGAcccc > 1:2954250/1‑68 (MQ=255)
aaaGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGAcccc > 1:2800407/1‑68 (MQ=255)
aaaGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGAcccc > 1:509999/1‑68 (MQ=255)
aaaGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGAcccc > 1:2796437/1‑68 (MQ=255)
aaaGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGAcccc > 1:2722529/1‑68 (MQ=255)
aaaGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGAcccc > 1:715590/1‑68 (MQ=255)
aaaGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGAcccc > 1:2667286/1‑68 (MQ=255)
aaaGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGAcccc > 1:1532940/1‑68 (MQ=255)
aaaGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGAcccc > 1:2207634/1‑68 (MQ=255)
aaaGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGAcccc > 1:2161193/1‑68 (MQ=255)
aaaGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGAcccc > 1:1622843/1‑68 (MQ=255)
aaaGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGA‑GGTACGAcccc > 1:1952535/1‑67 (MQ=255)
ggCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTca > 1:1391063/1‑68 (MQ=255)
ggCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTca > 1:1323694/1‑68 (MQ=255)
ggCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTca > 1:35977/1‑68 (MQ=255)
ggCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTca > 1:1297515/1‑68 (MQ=255)
ggCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTca > 1:1604147/1‑68 (MQ=255)
ggCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTca > 1:3347799/1‑68 (MQ=255)
ggCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTca > 1:3196388/1‑68 (MQ=255)
ggCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTca > 1:1787434/1‑68 (MQ=255)
ggCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTca > 1:1935759/1‑68 (MQ=255)
ggCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTca > 1:719441/1‑68 (MQ=255)
ggCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTca > 1:2248409/1‑68 (MQ=255)
ggCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTca > 1:2288851/1‑68 (MQ=255)
ggCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTca > 1:2398763/1‑68 (MQ=255)
ggCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTca > 1:2465133/1‑68 (MQ=255)
aacaaAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTcaaaca < 1:1673946/69‑1 (MQ=255)
aacaaAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTcaaaca < 1:1285093/69‑1 (MQ=255)
aacaaAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTcaaaca < 1:2445267/69‑1 (MQ=255)
aaaGCGAAAAAAAAGAGAAGGAAAATGCGATAgcg > 1:3188361/1‑35 (MQ=255)
aaaGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTCaaacaaac > 1:66064/1‑69 (MQ=255)
aaaGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTCaaacaaac > 1:2608136/1‑69 (MQ=255)
aaaGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTCaaacaaac > 1:3050649/1‑69 (MQ=255)
aaaGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTCaaacaaac > 1:2581472/1‑69 (MQ=255)
aaaGAGAAGGAAAATGCGATATCGCATGGACGGTACGACCCCAGAAGTTCAAACAAACAGcac < 1:805772/63‑1 (MQ=255)
aaaGAGAAGGAAAATGCGATATCGCATGGACGGTACGACCCCAGAAGTTCAAACAAACAGcac < 1:898566/63‑1 (MQ=255)
aaaGAGAAGGAAAATGCGATATCGCATGGACGGTACGACCCCAGAAGTTCAAACAAACAGcac < 1:895447/63‑1 (MQ=255)
aaaGAGAAGGAAAATGCGATATCGCATGGACGGTACGACCCCAGAAGTTCAAACAAACAGcac < 1:994605/63‑1 (MQ=255)
aaaGAGAAGGAAAATGCGATATCGCATGGACGGTACGACCCCAGAAGTTCAAACAAACAGcac < 1:655544/63‑1 (MQ=255)
aaaGAGAAGGAAAATGCGATATCGCATGGACGGTACGACCCCAGAAGTTCAAACAAACAGcac < 1:419012/63‑1 (MQ=255)
aaaGAGAAGGAAAATGCGATATCGCATGGACGGTACGACCCCAGAAGTTCAAACAAACAGcac < 1:366493/63‑1 (MQ=255)
aaaGAGAAGGAAAATGCGATATCGCATGGACGGTACGACCCCAGAAGTTCAAACAAACAGcac < 1:3080040/63‑1 (MQ=255)
aaaGAGAAGGAAAATGCGATATCGCATGGACGGTACGACCCCAGAAGTTCAAACAAACAGcac < 1:1671455/63‑1 (MQ=255)
aaaGAGAAGGAAAATGCGATATCGCATGGACGGTACGACCCCAGAAGTTCAAACAAACAGcac < 1:1537532/63‑1 (MQ=255)
aaaGAGAAGGAAAATGCGATATCGCATGGACGGTACGACCCCAGAAGTTCAAACAAACAGcac < 1:1358291/63‑1 (MQ=255)
aaaGAGAAGGAAAATGCGATATCGCATGGACGGTACGACCCCAGAAGTTCAAACAAACAGcac < 1:1113967/63‑1 (MQ=255)
aaaGAGAAGGAAAATGCGATATCGCATGGACGGTACAACCCCAGAAGTTCAAACAAACAGcac < 1:2055067/63‑1 (MQ=255)
|
GCTGGTGCCGCCCACACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCGATAGCGCATGGACGGTACGACCCCAGAAGTTCAAACAAACAGCAC > minE/1628975‑1629081
|
| 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
