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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
349,960 |
C→T |
56.4% |
P155L (CCC→CTC) |
hyi → |
hydroxypyruvate isomerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 349,960 | 0 | C | T | 56.4%
| 17.6
/ 65.9
| 55 | P155L (CCC→CTC) | hyi | hydroxypyruvate isomerase |
| Reads supporting (aligned to +/- strand): ref base C (13/11); new base T (13/18); total (26/29) |
| Fisher's exact test for biased strand distribution p-value = 4.22e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTGATGAAAGAAGATATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCAGTATGA > minE/349893‑350029
|
cTGATGAAAGAAGATATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCa < 1:1748389/70‑1 (MQ=255)
gaAAGAAGATATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGaa > 1:2860933/1‑71 (MQ=255)
aagaagATATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACt < 1:1309045/71‑1 (MQ=255)
aagaagATATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACt > 1:24312/1‑71 (MQ=255)
aagaagATATTTTATTACTGATTGAACCTATTAACCATTTTGAAATTCCTGGTTTCCATCCCACCGGAACt < 1:2973174/71‑1 (MQ=255)
agaTATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGc < 1:568899/71‑1 (MQ=255)
agaTATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGc < 1:3818376/71‑1 (MQ=255)
agaTATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCgg > 1:2274141/1‑70 (MQ=255)
agaTATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGc < 1:102913/71‑1 (MQ=255)
ttttATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACt < 1:2322704/62‑1 (MQ=255)
ttttATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACt < 1:236470/62‑1 (MQ=255)
ttattaCTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGgcgc < 1:3474991/70‑1 (MQ=255)
tattaCTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCt > 1:2047750/1‑70 (MQ=255)
ttaCTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGa < 1:1840933/70‑1 (MQ=255)
ttaCTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGa < 1:1174318/70‑1 (MQ=255)
tGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCa > 1:2404434/1‑58 (MQ=255)
tGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCa > 1:657771/1‑58 (MQ=255)
aTTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAattgat > 1:2519822/1‑71 (MQ=255)
aTTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAattg < 1:2928148/69‑1 (MQ=255)
aTTGAACCTATTAACCATTTTGATATTCCTGGGTTCCATCTCACCGGAACTCGGCAGGCGCTGAAattg < 1:3450762/69‑1 (MQ=255)
tGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGa > 1:1921451/1‑62 (MQ=255)
ccTATTAACCATTTTGATATTCCTGGTTTCCATCTCAc < 1:3730607/38‑1 (MQ=255)
ccTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATtgatga < 1:1230040/71‑1 (MQ=255)
aTTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCt < 1:1960218/53‑1 (MQ=255)
ttAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATtgatg < 1:1647709/66‑1 (MQ=255)
aaCCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATgttgg > 1:2126811/1‑71 (MQ=255)
aaCCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATgttg < 1:1356159/70‑1 (MQ=255)
aCCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATgttgg < 1:225850/70‑1 (MQ=255)
cATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGaaa > 1:2938307/1‑51 (MQ=255)
cATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATgttggttg < 1:1703518/71‑1 (MQ=255)
cATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATgttggttg < 1:2509976/71‑1 (MQ=255)
tttGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATgttggt > 1:1881712/1‑66 (MQ=255)
ttGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGgcg > 1:869941/1‑41 (MQ=255)
ttGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTtgctg > 1:34166/1‑70 (MQ=255)
tGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTtgctg > 1:2919281/1‑69 (MQ=255)
gATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCa < 1:2875392/70‑1 (MQ=255)
gATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCa < 1:2687120/70‑1 (MQ=255)
atatTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAAt < 1:2867589/71‑1 (MQ=255)
tatTCCTGGTTTCCATCTCACCGGAACTCGGCAgg > 1:3636027/1‑35 (MQ=255)
ttCCTGGTTACCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAAttt < 1:1438856/70‑1 (MQ=255)
ttCATGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAAttt > 1:1158747/1‑70 (MQ=255)
ccTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATtgatg > 1:1393544/1‑49 (MQ=255)
cTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGaa < 1:3087138/70‑1 (MQ=255)
ggTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAAt > 1:1331072/1‑71 (MQ=255)
gTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATgttgg > 1:3616178/1‑52 (MQ=255)
tCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCAg > 1:1603563/1‑71 (MQ=255)
tCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCAg > 1:1514878/1‑71 (MQ=255)
tCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCAg > 1:581913/1‑71 (MQ=255)
tCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCAg > 1:281099/1‑71 (MQ=255)
tCCATACCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCAg > 1:824338/1‑71 (MQ=255)
tCCATACCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCAg > 1:828791/1‑71 (MQ=255)
ccATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCAg > 1:3339411/1‑70 (MQ=255)
ccATCCCACAGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCAg < 1:3559172/70‑1 (MQ=255)
cATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCAGt < 1:639935/70‑1 (MQ=255)
aTCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAAt < 1:3751938/56‑1 (MQ=255)
ccACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCAGTATGa > 1:2126883/1‑70 (MQ=255)
|
CTGATGAAAGAAGATATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCAGTATGA > minE/349893‑350029
|
| 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
