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 |
|
A16 F258 I0 R1
|
432 |
103.0 |
5191697 |
92.7% |
4812703 |
99.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
467,839 |
T→C |
74.8% |
V143A (GTC→GCC) |
cof → |
thiamine pyrimidine pyrophosphate hydrolase; HMP‑PP phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 467,839 | 0 | T | C | 74.8%
| 113.6
/ 33.3
| 67 | V143A (GTC→GCC) | cof | thiamine pyrimidine pyrophosphate hydrolase; HMP‑PP phosphatase |
| Reads supporting (aligned to +/- strand): ref base T (11/6); new base C (24/26); total (35/32) |
| Fisher's exact test for biased strand distribution p-value = 2.72e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.90e-01 |
TTACCGGGAAAGAGATCCCTGCGTTGTTGCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGTCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAGCGTGCACATTTGTGTTTT > NC_000913/467743‑467933
|
ttACCGGGAAAGAGATCCCTGCGTTGTTGCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCAc < 2:1424784/100‑1 (MQ=255)
ccGGGAAAGAGATCCCTGCGTTGTTGCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCaa > 2:1558594/1‑100 (MQ=255)
ccGGGAAAGAGATCCCTGCGTTGTTGCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCaa > 2:510214/1‑100 (MQ=255)
ggAAAGAGATCCCTGCGTTGTTGCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGAt > 1:1824788/1‑100 (MQ=255)
ggAAAGAGATCCCTGCGTTGTTGCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGAt > 1:1824802/1‑100 (MQ=255)
gAAAGCGAGCCCTGCGTTGTTGCAGGCTTTTGTCTATAGCGGGTTTCGTTACCAGATACTCGATGTCCAAAATATGCCACTGGGCAGCGCCACCAAGATc < 1:2268025/100‑1 (MQ=255)
gAAAGAGATCCCTGCGTTGTTGTAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATc < 2:2417032/100‑1 (MQ=255)
aaGAGATCCCTGCGTTGTTGCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAGTGCCACTACGCAGCGCCACCCAGATCTg > 1:1781590/1‑100 (MQ=255)
gagaTCCCTGCGTTGTTGCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCt < 2:1553344/100‑1 (MQ=255)
gaTCCCTGCGTTGTTGCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTTAAAAAAATGCCTCTCGGCAGCGCCACCGAGATCTGCTTc < 1:1482222/100‑1 (MQ=255)
aTCCCTGCGTTTTGGCAGGCATTCGTTTTTAGCTTTTTTCGTTATCAGATAATGGATGTTTAGAATATGCCTCGCGGCAGCGCCACCAAGATCTGCTTCt < 1:1390728/100‑1 (MQ=255)
cccTGCGTTGTTGCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGTCACCAAGATCTGCTTCtg > 1:362868/1‑99 (MQ=255)
ccTGCGTTGTTGCAGGCATATGTCTATCGCGGTTTTCGTTATCAGATAATCAATGTAAAAAAAATGCCACTCGGCAGCGTCACCAAGATCTGCTTCtgtg < 1:2225942/100‑1 (MQ=255)
tGCGTTGTTGCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGTCACCAAGATCTGCTTCTGTGGc < 1:1000026/100‑1 (MQ=255)
gCGTTGTTGCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGTCACCAAGATCTGCTTCTGTGGCg > 1:1352615/1‑100 (MQ=255)
tgttgCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCa < 2:307765/100‑1 (MQ=255)
tgttgCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCa < 1:254512/100‑1 (MQ=255)
ttgCAGGCATTTGGCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCTCTCGGCAGCTCCACCAAGATCTGCTTCTGTGGCGATCacg < 1:1181221/100‑1 (MQ=255)
gCAGGCGTTTGTATATAGCGGTTTTCGTTATCAGATAATCGATGTCAAACACCTGCCACTCGGCAACGCCACTGAGATCTCCtt > 1:2508845/1‑84 (MQ=255)
gCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCacgac < 2:2088542/100‑1 (MQ=255)
gCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCacgac < 2:680219/100‑1 (MQ=255)
ggCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCCCGACGAt > 1:2508070/1‑100 (MQ=255)
cATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGCTGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCacgcc > 1:2195233/1‑93 (MQ=255)
tttGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTa > 2:320158/1‑100 (MQ=255)
tataGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGTCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCt > 1:1541776/1‑100 (MQ=255)
taGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGTCAGCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTg > 1:1653666/1‑100 (MQ=255)
aGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGc > 2:1072614/1‑100 (MQ=255)
gCGGTTTTCGTTATCAGATAATCGCTGTCAAAAAAATGCCGCTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCa < 2:2415281/100‑1 (MQ=255)
gCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCa < 1:2565363/100‑1 (MQ=255)
cGGTTTTCGTTATCATATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAg < 2:2557502/100‑1 (MQ=255)
cGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAg < 2:1286154/100‑1 (MQ=255)
ggTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGTCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGa > 1:1037798/1‑100 (MQ=255)
gTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGTCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGAt > 1:2459942/1‑100 (MQ=255)
gTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGTCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGAt < 2:1541785/100‑1 (MQ=255)
tttCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGTCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATcc < 2:1037801/100‑1 (MQ=255)
cGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGc < 2:587667/100‑1 (MQ=255)
cGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGc > 2:512997/1‑100 (MQ=255)
cGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGCCGATCACGACGATCTTACACGCTTGCAGATCCAGc > 1:421556/1‑100 (MQ=255)
gTTCTCAGATAAAAGAAATAAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAg < 1:2130401/98‑1 (MQ=255)
tATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGTCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCtat > 2:1453248/1‑100 (MQ=255)
tATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCtat < 1:809603/100‑1 (MQ=255)
tCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGTCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATAc > 2:1332622/1‑100 (MQ=255)
aaaTAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCATGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGa > 2:1750219/3‑100 (MQ=255)
aGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGTCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACg > 2:1840948/1‑99 (MQ=255)
aTAATCGATGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAg < 2:372954/100‑1 (MQ=255)
tGTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGc > 2:17352/1‑100 (MQ=255)
gTCAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCg > 2:1909029/1‑100 (MQ=255)
cAAAAAAATGCCACTCGGCAGCGTCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCg > 1:2175085/1‑98 (MQ=255)
cAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCTTTAGGc > 1:709712/1‑97 (MQ=255)
cAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAg > 2:389838/1‑100 (MQ=255)
cAAAAAAATGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCAATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAg > 1:2354179/1‑95 (MQ=255)
aaaaaaaTGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTCGACGCTTGCAGTTTCAGCTATCCGAAGCATTAGTCg > 1:1254151/1‑97 (MQ=255)
aaaaaaTGCCACTCGGCAGCGTCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAGCg < 2:1722738/100‑1 (MQ=255)
aaaaaaTGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAGCg > 2:2243708/1‑100 (MQ=255)
aaaaTGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAGCGTg < 1:470234/100‑1 (MQ=255)
aaaTGTCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAGCGTGc < 2:582696/100‑1 (MQ=255)
aaTGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAGCGTGca < 1:2261025/100‑1 (MQ=255)
tGCCACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAGCGTGcaca < 1:2199798/100‑1 (MQ=255)
ccACTCGGCAGCGTCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAGCGTGTACAt > 1:2216179/1‑99 (MQ=255)
ccACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAGCGTGCACAtt < 1:2541430/100‑1 (MQ=255)
ccACTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAGCGTGCACAtt > 2:361088/1‑100 (MQ=255)
ccACTCGGCAGCGCCACCAAGATCTGCTTCTGTGACGATCACGACGAACTAACACGCTTGCAGCTCCAGCTCTGCGATGCATTAGCCGAGCGCGCACAt > 1:543122/1‑99 (MQ=255)
aCTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAGCGTGCACATTtg < 2:1195898/100‑1 (MQ=255)
aCTCGGCAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAGCGTGCACATTtg > 1:1970306/1‑100 (MQ=255)
cAGCGTCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAGCGTGCACATTTGTGtttt < 2:347196/100‑1 (MQ=255)
cAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATGCAGCTATACGAAGGATTATGCGAGCGGGCACATGTGTGtttt > 1:2524768/1‑100 (MQ=255)
cAGCGCCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAGCGTGCACATTTGTGtttt < 2:1978842/100‑1 (MQ=255)
|
TTACCGGGAAAGAGATCCCTGCGTTGTTGCAGGCATTTGTCTATAGCGGTTTTCGTTATCAGATAATCGATGTCAAAAAAATGCCACTCGGCAGCGTCACCAAGATCTGCTTCTGTGGCGATCACGACGATCTTACACGCTTGCAGATCCAGCTATACGAAGCATTAGGCGAGCGTGCACATTTGTGTTTT > NC_000913/467743‑467933
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
