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 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,591,880 |
C→T |
10.4% |
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 | 10.4%
| 194.5
/ 10.8
| 67 | M201I (ATG→ATA) | yihF | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (27/33); new base T (2/5); total (29/38) |
| Fisher's exact test for biased strand distribution p-value = 6.90e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAACCGGAAATTTCTTTTCTTCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATGAACTACCA > W3110S.gb/3591810‑3591949
|
cAACCGGAAATTTCTTTTCTTATAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTc < 1:1774128/71‑1 (MQ=255)
ggAAATTTCTTTTCTTCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTgg > 1:616021/1‑71 (MQ=255)
aaTTTCTTTTCTTCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGa > 1:757371/1‑71 (MQ=255)
aTTTCTTTTCTTCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGAt < 1:1338173/71‑1 (MQ=255)
aTTTCTTTTCTTCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGAt < 1:2540154/71‑1 (MQ=255)
tttcttttctTCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATa < 1:1829215/71‑1 (MQ=255)
ttcttttcttCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCa > 1:2375024/1‑61 (MQ=255)
ttcttttcttCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATaa > 1:29476/1‑71 (MQ=255)
ttcttttcttCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCAGTTACTTTGTTCATTGGTGATaa > 1:1179380/1‑71 (MQ=255)
ttcttcTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGc < 1:1072121/70‑1 (MQ=255)
aTCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACaa < 1:1958038/69‑1 (MQ=255)
aTCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAat < 1:612719/70‑1 (MQ=255)
aTCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAat < 1:1671155/70‑1 (MQ=255)
aTCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAat < 1:737990/70‑1 (MQ=255)
aTCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAat < 1:234640/70‑1 (MQ=255)
gcgcCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCt > 1:2567156/1‑71 (MQ=255)
gcgcCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCt > 1:130605/1‑71 (MQ=255)
gagaATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCa > 1:516453/1‑39 (MQ=255)
aaTCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATaa > 1:1067783/1‑46 (MQ=255)
aaTCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTg > 1:2311968/1‑71 (MQ=255)
tCAATGGTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAatat > 1:919687/1‑58 (MQ=255)
tCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGcc > 1:2418917/1‑71 (MQ=255)
cAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAatat > 1:2114984/1‑57 (MQ=255)
aaTGGTAAAACTTTTTGCCGTTACTTTGTTTATTGGTGATAATTGCAGAACAata > 1:2388593/1‑55 (MQ=255)
aaTGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACaa > 1:1598810/1‑53 (MQ=255)
aTGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTc < 1:985537/71‑1 (MQ=255)
aTGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTc < 1:596547/71‑1 (MQ=255)
aTGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTc < 1:1474393/71‑1 (MQ=255)
aTGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTc < 1:1662184/71‑1 (MQ=255)
aTGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATATTCGACTTTGCCTTc < 1:2209825/71‑1 (MQ=255)
tGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGAt < 1:1354331/38‑1 (MQ=255)
tGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAAc < 1:105897/49‑1 (MQ=255)
tGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAAc < 1:884425/49‑1 (MQ=255)
tGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAAc < 1:644850/49‑1 (MQ=255)
tGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTc > 1:2808021/1‑70 (MQ=255)
gTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCa < 1:1778215/43‑1 (MQ=255)
tAAAACTTTTTGCCGTTACTTTGTTCATTGGTGAt < 1:1850916/35‑1 (MQ=255)
tAAAACTTTTTGCCGTTACTTTGTTCATTGGTGAt < 1:1227587/35‑1 (MQ=255)
tAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAAc < 1:420994/46‑1 (MQ=255)
tAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAAc < 1:2639478/46‑1 (MQ=255)
aaaaCTTTTTGCCGTTACTTTGTTCATTGGTGATaa > 1:1194277/1‑36 (MQ=255)
aaaaCTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGa > 1:1175457/1‑56 (MQ=255)
aaaaCTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAatat > 1:468628/1‑71 (MQ=255)
aCTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATc > 1:927207/1‑69 (MQ=255)
cTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAg > 1:560817/1‑71 (MQ=255)
tttttGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGAc < 1:284076/52‑1 (MQ=255)
tttGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGt < 1:2688908/70‑1 (MQ=255)
tttGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTCCCTTCAATATCCAGGt < 1:623154/70‑1 (MQ=255)
ccGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGAc < 1:1835127/71‑1 (MQ=255)
ttACTTTGTTTATTGGTGATAATTGCAGAACAATATc < 1:355587/37‑1 (MQ=255)
ttACTTTGTTTATTGGTGATAATTGCAGAACAATATc < 1:2696655/37‑1 (MQ=255)
ttACTTTGTTTATTGGTGATAATTGCAGAACAATATCTTCGACTTTGcc < 1:763472/49‑1 (MQ=255)
ttACTTTGTTTATTGGGGATAATTGCAGAACAATATCTTCGACTTTGcc < 1:2222597/49‑1 (MQ=255)
ttACTTTGTTCATTGGTGATAATTGCAGAACAATATc < 1:2551974/37‑1 (MQ=255)
ttACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCa < 1:2240689/53‑1 (MQ=255)
aCTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATg < 1:589148/70‑1 (MQ=255)
aCTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATg < 1:1432486/70‑1 (MQ=255)
cTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATg < 1:214322/69‑1 (MQ=255)
cTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATGa < 1:1752927/70‑1 (MQ=255)
tGTTCATTGGTGATAATTGCAGAACAATATCTTCGACt > 1:2236388/1‑38 (MQ=255)
tGTTCATTGGTGATAATTGCAGAACAATATCTTCGACt > 1:1755799/1‑38 (MQ=255)
tGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTc < 1:830577/46‑1 (MQ=255)
tGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGAc > 1:975266/1‑62 (MQ=255)
tCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAgg > 1:398983/1‑53 (MQ=255)
tCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAgg > 1:1917265/1‑53 (MQ=255)
tCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAgg > 1:279414/1‑53 (MQ=255)
tCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACa > 1:2431071/1‑60 (MQ=255)
tCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATGAACTACCa > 1:2258847/1‑71 (MQ=255)
|
CAACCGGAAATTTCTTTTCTTCTAATCGCGCCAGAGAATCAATGGTAAAACTTTTTGCCGTTACTTTGTTCATTGGTGATAATTGCAGAACAATATCTTCGACTTTGCCTTCAATATCCAGGTTAGACAATGAACTACCA > W3110S.gb/3591810‑3591949
|
| 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
