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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,134,927 |
T→C |
29.1% |
N289N (AAT→AAC) |
pfkB → |
6‑phosphofructokinase II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,134,927 | 0 | T | C | 29.1%
| 93.6
/ 43.1
| 96 | N289N (AAT→AAC) | pfkB | 6‑phosphofructokinase II |
| Reads supporting (aligned to +/- strand): ref base T (35/33); new base C (12/16); total (47/49) |
| Fisher's exact test for biased strand distribution p-value = 5.05e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.66e-01 |
AAATGCCTCTCTTGAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCTTTCCCGCTA > minE/1134864‑1134989
|
aaaTGCCTCTCTTGAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAggg > 1:1629943/1‑69 (MQ=255)
aaaTGCCTCTCTTGAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAggg > 1:148575/1‑69 (MQ=255)
gAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGGCACACTCAATCAGGGAACACGTCtg < 1:309365/66‑1 (MQ=255)
gAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCtg < 1:3171414/66‑1 (MQ=255)
gAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCtg < 1:1088780/66‑1 (MQ=255)
gAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCtg < 1:652642/66‑1 (MQ=255)
gAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCtg < 1:534394/66‑1 (MQ=255)
gAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCtg < 1:516652/66‑1 (MQ=255)
gAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCtg < 1:2087265/66‑1 (MQ=255)
gAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCtg < 1:3016281/66‑1 (MQ=255)
gAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCtg < 1:3259856/66‑1 (MQ=255)
gAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCtg < 1:1546377/66‑1 (MQ=255)
gAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCtg < 1:2431450/66‑1 (MQ=255)
gAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGCAACACGTCtg < 1:2469919/66‑1 (MQ=255)
aaGTGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCtg < 1:3378984/65‑1 (MQ=255)
gaTGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCtg < 1:15178/61‑1 (MQ=255)
aTGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCAt < 1:2472731/69‑1 (MQ=255)
aTGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCAt < 1:1638400/69‑1 (MQ=255)
aTGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCAt < 1:1925629/69‑1 (MQ=255)
aTGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCAt < 1:2476560/69‑1 (MQ=255)
aTGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCAt < 1:1574311/69‑1 (MQ=255)
aTGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCAt < 1:3266520/69‑1 (MQ=255)
aTGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCAt < 1:1417829/69‑1 (MQ=255)
aTGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCAt < 1:1011620/69‑1 (MQ=255)
aTGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCAt < 1:405485/69‑1 (MQ=255)
aTGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCAt < 1:45504/69‑1 (MQ=255)
tGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCAt < 1:394494/68‑1 (MQ=255)
tGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCAt < 1:2688317/68‑1 (MQ=255)
tGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCAt < 1:2062571/68‑1 (MQ=255)
gCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTAc < 1:2105545/69‑1 (MQ=255)
gCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTAc < 1:1528046/69‑1 (MQ=255)
gCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTAc < 1:1331029/69‑1 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACCCGTCTGTGCTCCCATGACGATACGCAAAAAAt > 1:2401773/1‑59 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTTCTCCCATGACGATACGCAAAAAAtt > 1:2274439/1‑60 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATg > 1:2818462/1‑43 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAAtt > 1:2256606/1‑60 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAAtt > 1:3152480/1‑60 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAAtt > 1:3105823/1‑60 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAAtt > 1:2406000/1‑60 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAAtt > 1:975656/1‑60 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAAtt > 1:1176754/1‑60 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAAtt > 1:1555209/1‑60 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAAtt > 1:2071074/1‑60 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAAtt > 1:1562478/1‑60 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAAtt > 1:1580307/1‑60 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAAtt > 1:1629012/1‑60 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTAc < 1:2864480/69‑1 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTAc < 1:2455424/69‑1 (MQ=255)
aGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTAc < 1:2459310/69‑1 (MQ=255)
aGTGCAGACACACTCAATCAGGAAACACGTCTGTGCTCCCATGACGATACGCAAAAAAtt > 1:1857426/1‑60 (MQ=255)
cAGCCACACTCAATCAGGGCACACGTCTGTGCTCCCATGACGATACGCa > 1:1312604/1‑49 (MQ=255)
cAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCttt > 1:1630557/1‑69 (MQ=255)
cAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCttt > 1:2961855/1‑69 (MQ=255)
cAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCttt > 1:2988986/1‑69 (MQ=255)
cAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCttt > 1:3033584/1‑69 (MQ=255)
cAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCttt > 1:1705146/1‑69 (MQ=255)
cAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCttt > 1:2205899/1‑69 (MQ=255)
cAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCttt > 1:1133640/1‑69 (MQ=255)
cAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCttt > 1:2267035/1‑69 (MQ=255)
cAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCttt > 1:2237425/1‑69 (MQ=255)
cAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCttt > 1:2569588/1‑69 (MQ=255)
cacaCTCAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTTCGCGTACCttt > 1:2918282/1‑65 (MQ=255)
cacaCTCAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTGCGCGTACCttt > 1:2922207/1‑65 (MQ=255)
cacaCTCAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCttt > 1:1314452/1‑65 (MQ=255)
cacaCTCAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCttt > 1:3183944/1‑65 (MQ=255)
cacaCTCAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCttt > 1:3134046/1‑65 (MQ=255)
cacaCTCAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCttt > 1:1943008/1‑65 (MQ=255)
cacaCTCAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCttt > 1:1535980/1‑65 (MQ=255)
cacaCTCAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCttt > 1:1435569/1‑65 (MQ=255)
cacaCTCAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCttt > 1:2624846/1‑65 (MQ=255)
cacaCTCAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCttt > 1:724271/1‑65 (MQ=255)
cacaCTCAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCttt > 1:2803302/1‑65 (MQ=255)
cacaCTCAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTAAGCGTACCttt > 1:343078/1‑65 (MQ=255)
cTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCTTTCCCGCTa > 1:1024998/1‑68 (MQ=255)
cTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCTTTCCCGCTa > 1:408335/1‑68 (MQ=255)
cTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCTTTCCCGCTa > 1:718639/1‑68 (MQ=255)
cTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCTTTCCCGCTa > 1:1788760/1‑68 (MQ=255)
cTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCTTTCCCGCTa > 1:2817065/1‑68 (MQ=255)
cTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCTTTCCCGCTa > 1:1783615/1‑68 (MQ=255)
cTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTAACCTTTCCCGCTa > 1:2805931/1‑68 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCTTGACGATACGCAAAAAATTTACGCGTACCTTTc < 1:3004209/60‑1 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCTTTc < 1:2923810/60‑1 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCTTTc < 1:850778/60‑1 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCTTTc < 1:2140151/60‑1 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCTTTc < 1:2648244/60‑1 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCTTTc < 1:1260874/60‑1 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCTTTc < 1:2077283/60‑1 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCTTTc < 1:2889600/60‑1 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCTTTc < 1:1997102/60‑1 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCTTTc < 1:1735143/60‑1 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCTTTc < 1:3425308/60‑1 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCTTTc < 1:1910738/60‑1 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCTTTc < 1:1938212/60‑1 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCTTTc < 1:2282932/60‑1 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCATGACGATACGCAAAAAATTTACGCGTACCTTTc < 1:3211976/60‑1 (MQ=255)
cAACCAGGGAACACGCCTGTGCTCCCATCACGATACGCAAAAAATTTACGCGTACCTTTc < 1:1974878/60‑1 (MQ=255)
|
AAATGCCTCTCTTGAAGAGATGGTTCGTTTTGGCGTAGCTGCGGGGAGTGCAGCCACACTCAATCAGGGAACACGTCTGTGCTCCCATGACGATACGCAAAAAATTTACGCTTACCTTTCCCGCTA > minE/1134864‑1134989
|
| 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
