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 I3 R1
|
375 |
42.1 |
2927644 |
71.4% |
2090337 |
57.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,598,305 |
Δ5 bp |
coding (1096‑1100/1362 nt) |
yjiZ ← |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,598,301 | 0 | A | . | 84.8%
| 138.8
/ 26.4
| 46 | coding (1104/1362 nt) | yjiZ | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base A (7/0); new base . (0/39); total (7/39) |
| Fisher's exact test for biased strand distribution p-value = 1.87e-08 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.23e-01 |
| * | W3110S.gb | 4,598,302 | 0 | C | . | 84.8%
| 134.5
/ 27.0
| 46 | coding (1103/1362 nt) | yjiZ | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base C (7/0); new base . (0/39); total (7/39) |
| Fisher's exact test for biased strand distribution p-value = 1.87e-08 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.23e-01 |
| * | W3110S.gb | 4,598,303 | 0 | A | . | 84.8%
| 138.8
/ 26.4
| 46 | coding (1102/1362 nt) | yjiZ | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base A (7/0); new base . (0/39); total (7/39) |
| Fisher's exact test for biased strand distribution p-value = 1.87e-08 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.23e-01 |
| * | W3110S.gb | 4,598,304 | 0 | G | . | 84.8%
| 130.2
/ 25.2
| 46 | coding (1101/1362 nt) | yjiZ | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base G (7/0); new base . (0/39); total (7/39) |
| Fisher's exact test for biased strand distribution p-value = 1.87e-08 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.23e-01 |
| * | W3110S.gb | 4,598,305 | 0 | A | . | 84.8%
| 138.8
/ 26.4
| 46 | coding (1100/1362 nt) | yjiZ | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base A (7/0); new base . (0/39); total (7/39) |
| Fisher's exact test for biased strand distribution p-value = 1.87e-08 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.69e-01 |
GTTCCGGCAAAGTGAATACAGAACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCGCTTGTGG > W3110S.gb/4598284‑4598357
|||||
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCTATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:2239914/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:379723/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:2211333/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:1007445/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:2292826/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:2475164/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:2520156/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:2709135/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:2733046/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:2810004/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:2819883/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:2219366/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:55891/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:568094/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:570182/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:591067/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:763456/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:804766/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:830056/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:893976/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:95819/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:970261/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:2096856/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:1127730/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:1166244/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:1258521/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:1279331/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:1325214/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:1342703/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:1399074/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:149597/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:1616110/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:1624722/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:1686313/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:1728622/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:1751669/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:1850838/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:2002564/62‑1 (MQ=255)
gTTCCGGCAAAGTGAAT‑‑‑‑‑ACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCg < 1:210514/62‑1 (MQ=255)
tGAATACAGAACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCGCTTGTgg > 1:1621405/1‑62 (MQ=255)
tGAATACAGAACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCGCTTGTgg > 1:287870/1‑62 (MQ=255)
tGAATACAGAACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCGCTTGTgg > 1:429745/1‑62 (MQ=255)
tGAATACAGAACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCGCTTGTgg > 1:1603718/1‑62 (MQ=255)
tGAATACAGAACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCGCTTGTgg > 1:2777608/1‑62 (MQ=255)
tGAATACAGAACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCGCTTGTgg > 1:1103005/1‑62 (MQ=255)
tGAATACAGAACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCGCGTGTgg > 1:2026020/1‑62 (MQ=255)
|||||
GTTCCGGCAAAGTGAATACAGAACAGTGCCATGCCAATCAGCAGAACCGCCGTCATGGATGTTGTCGCTTGTGG > W3110S.gb/4598284‑4598357
|
| 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
