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 |
|
A1 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,591,880 |
C→T |
56.9% |
M201I (ATG→ATA) |
yihF ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,591,880 | 0 | C | T | 56.9%
| 19.1
/ 65.4
| 51 | M201I (ATG→ATA) | yihF | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (10/12); new base T (13/16); total (23/28) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGAAATTTCTTTTCTTCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATGAACTAC > W3110S.gb/3591815‑3591947
|
ggAAATTTCTTTTCTTCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTgg > 1:1071239/1‑71 (MQ=255)
ggAAATTTCTTTTCTTCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTgg > 1:562667/1‑71 (MQ=255)
ggAAATTTCTTTTCTTCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTgg > 1:425508/1‑71 (MQ=255)
ggAAATTTCTTTTCTTCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTgg > 1:1362259/1‑71 (MQ=255)
gAAATTTCTTTTCTTCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGt < 1:1168856/71‑1 (MQ=255)
gAAATTTCTTTTCTTCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGt < 1:34870/71‑1 (MQ=255)
ctAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAAc < 1:1154817/70‑1 (MQ=255)
ctAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAAc < 1:1307404/70‑1 (MQ=255)
aTCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAat < 1:1155019/70‑1 (MQ=255)
aTCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAat < 1:248266/70‑1 (MQ=255)
aTCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAat < 1:240732/70‑1 (MQ=255)
aTCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAat < 1:1904262/70‑1 (MQ=255)
aTCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAat < 1:1467849/70‑1 (MQ=255)
gcCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTc < 1:981434/71‑1 (MQ=255)
gcCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTc < 1:56786/71‑1 (MQ=255)
gcCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTc < 1:1292494/71‑1 (MQ=255)
gcCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTc < 1:1295019/71‑1 (MQ=255)
agagAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGAc > 1:564976/1‑71 (MQ=255)
agagAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGAc < 1:1213425/71‑1 (MQ=255)
agagAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGAc < 1:1526621/71‑1 (MQ=255)
gaATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACttt > 1:1070481/1‑71 (MQ=255)
gaATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACttt > 1:1845677/1‑71 (MQ=255)
gaATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACttt > 1:1750200/1‑71 (MQ=255)
gaATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACttt > 1:644209/1‑71 (MQ=255)
cAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCt > 1:1608494/1‑71 (MQ=255)
cAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCt > 1:177987/1‑71 (MQ=255)
cAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCt > 1:1798420/1‑71 (MQ=255)
cAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCt > 1:1449848/1‑71 (MQ=255)
cAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCt > 1:1465102/1‑71 (MQ=255)
gTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAat < 1:563905/71‑1 (MQ=255)
gTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAat < 1:167295/71‑1 (MQ=255)
gTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAat < 1:1706518/71‑1 (MQ=255)
gTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAat < 1:1969407/71‑1 (MQ=255)
gTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAat < 1:192332/71‑1 (MQ=255)
gTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCaa > 1:1459469/1‑70 (MQ=255)
gTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCaa > 1:1461956/1‑70 (MQ=255)
gTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCaa > 1:109879/1‑70 (MQ=255)
gTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATATTCGACTTTGCCTTCa > 1:598248/1‑69 (MQ=255)
tAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAat < 1:1082944/70‑1 (MQ=255)
ccGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGAc < 1:614202/71‑1 (MQ=255)
ccGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGAc < 1:1575447/71‑1 (MQ=255)
aCTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATg > 1:1437099/1‑70 (MQ=255)
aCTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATg > 1:1182236/1‑70 (MQ=255)
aCTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATg > 1:1899146/1‑70 (MQ=255)
aCTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATg > 1:1343337/1‑70 (MQ=255)
aCTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATg > 1:1442433/1‑70 (MQ=255)
cTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATGa < 1:1294247/70‑1 (MQ=255)
cTTTGTTTATTGCTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATGa < 1:426364/70‑1 (MQ=255)
tGTTTATT‑GTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAat < 1:204485/48‑1 (MQ=255)
ttCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATGAACTAc < 1:1207468/70‑1 (MQ=255)
ttCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATGAACTAc < 1:932124/70‑1 (MQ=255)
|
GGAAATTTCTTTTCTTCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATGAACTAC > W3110S.gb/3591815‑3591947
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
