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 |
2,629,792 |
T→C |
10.7% |
D467G (GAC→GGC) |
guaA ← |
GMP synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,629,792 | 0 | T | C | 10.7%
| 139.9
/ 9.9
| 56 | D467G (GAC→GGC) | guaA | GMP synthetase |
| Reads supporting (aligned to +/- strand): ref base T (25/25); new base C (3/3); total (28/28) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.57e-01 |
GTACGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTGAACGCCT > W3110S.gb/2629722‑2629855
|
gTACGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGt > 1:1029826/1‑71 (MQ=255)
gTACGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCAACAGCACGCAGAGAGACAACCCAGt < 1:566083/71‑1 (MQ=255)
cGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCATAGAGACAACCCAGTCAt < 1:1910709/71‑1 (MQ=255)
cGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCa < 1:2358521/70‑1 (MQ=255)
cGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCa < 1:2384682/70‑1 (MQ=255)
cGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCAt < 1:1296509/71‑1 (MQ=255)
cGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCAt < 1:1459969/71‑1 (MQ=255)
cAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACt < 1:1934143/71‑1 (MQ=255)
tGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTAc > 1:1219996/1‑70 (MQ=255)
tGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTAc > 1:1587725/1‑70 (MQ=255)
tGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACg < 1:195023/71‑1 (MQ=255)
gcCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGAc < 1:251197/70‑1 (MQ=255)
gtgtGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGc > 1:302755/1‑71 (MQ=255)
tgtgCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGcc < 1:1533913/71‑1 (MQ=255)
tgCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCa > 1:372403/1‑52 (MQ=255)
tgCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCa > 1:2384629/1‑71 (MQ=255)
tgCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCa > 1:890690/1‑71 (MQ=255)
tgCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCa > 1:2120690/1‑71 (MQ=255)
cGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACt > 1:180757/1‑54 (MQ=255)
cATAAAGTCGATGGTTTCGACAGCAAGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGc > 1:2650012/1‑71 (MQ=255)
aTAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGc > 1:1925432/1‑70 (MQ=255)
aaaGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCa > 1:2393013/1‑43 (MQ=255)
aaaGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCaa > 1:1817389/1‑71 (MQ=255)
aaGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCa > 1:2538284/1‑69 (MQ=255)
aaGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAAc > 1:577127/1‑71 (MQ=255)
aaGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAAc > 1:1096617/1‑71 (MQ=255)
gTCTATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCaa > 1:1483260/1‑68 (MQ=255)
gTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACgg < 1:2375073/71‑1 (MQ=255)
aTGGTTTCGACAGCACGCAGAGAGACAACCCAGCCAt < 1:2371265/37‑1 (MQ=255)
aTGGTTTCGACAGCACGCAGAGAGACAACCCAGCCAt < 1:1182263/37‑1 (MQ=255)
aTGGTTTCGACAGCACGC‑‑AGAGACAACCCAGTCATACTTACGACCATAGcc < 1:2706168/51‑1 (MQ=255)
tGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACg > 1:1970999/1‑70 (MQ=255)
tGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGt < 1:2147340/71‑1 (MQ=255)
tGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGt < 1:2713278/71‑1 (MQ=255)
tGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGt < 1:1421548/71‑1 (MQ=255)
tGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGt < 1:2076111/71‑1 (MQ=255)
ggTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGt < 1:1905270/70‑1 (MQ=255)
ggTTTCGACAGCACGCAGAGAGACAACCCAGCCATAc > 1:494316/1‑37 (MQ=255)
ggTTTCGACAGCACGCAGAGAGACAACCCAGCCATAc > 1:25655/1‑37 (MQ=255)
tttCGACAGCACGCAGAGAGACAACCCAGTCATACTTACg < 1:699409/40‑1 (MQ=255)
ttCGACAGCACGCAGAGAGACAACCCAGTCATACTTAc > 1:2393091/1‑38 (MQ=255)
ttCGACAGCACGCAGAGAGACAACCCAGTCATACTTAc > 1:270/1‑38 (MQ=255)
ttCGACAGCACGCAGAGAGACAACCCAGTCATACTTAc > 1:2812047/1‑38 (MQ=255)
aGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGa < 1:1873393/57‑1 (MQ=255)
aGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAgg > 1:2711474/1‑70 (MQ=255)
aCGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAaca < 1:2575862/71‑1 (MQ=255)
cGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAgcg > 1:1786896/1‑65 (MQ=255)
cGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAacac < 1:441775/71‑1 (MQ=255)
gagagaCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGt < 1:2040206/70‑1 (MQ=255)
gagaCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTAc > 1:2735638/1‑53 (MQ=255)
gagaCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTAc > 1:2440732/1‑53 (MQ=255)
gagaCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTGaa > 1:1835511/1‑71 (MQ=255)
agaCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTGAAc < 1:916121/71‑1 (MQ=255)
gaCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGaa > 1:473375/1‑60 (MQ=255)
aCCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTGAACGCCt < 1:201558/70‑1 (MQ=255)
gTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTg < 1:2700008/58‑1 (MQ=255)
gTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTg < 1:1909998/58‑1 (MQ=255)
gTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTg < 1:575210/58‑1 (MQ=255)
|
GTACGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTGAACGCCT > W3110S.gb/2629722‑2629855
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
