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 |
1,883,630 |
G→C |
41.1% |
Q285E (CAA→GAA) |
rumA ← |
23S rRNA (uracil‑5)‑methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,883,630 | 0 | G | C | 41.1%
| 36.8
/ 72.6
| 73 | Q285E (CAA→GAA) | rumA | 23S rRNA (uracil‑5)‑methyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (20/23); new base C (17/13); total (37/36) |
| Fisher's exact test for biased strand distribution p-value = 4.78e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.21e-01 |
GTCGCCAATGGCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGA > minE/1883566‑1883691
|
gtCGCCAATGGCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGca < 1:1623564/67‑1 (MQ=255)
aaTGGCAGTGTAAAGTTGCCCATACCTCAGAACAGATCCAGTACGCGATCTTCAGGTTCCACATCCa < 1:10626/67‑1 (MQ=255)
aaTGGCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTCCACATCCa < 1:1009206/67‑1 (MQ=255)
aaTGGCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTCCACATCCa < 1:3029565/67‑1 (MQ=255)
aaTGGCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTCCACATCCa < 1:371509/67‑1 (MQ=255)
aaTGGCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTCCACATCCa < 1:2984740/67‑1 (MQ=255)
aaTGGCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTCCACATCCa < 1:451456/67‑1 (MQ=255)
aaTGGCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTCCACATCCa < 1:535502/67‑1 (MQ=255)
aaTGGCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTCCACATCCa < 1:1359582/67‑1 (MQ=255)
aaTGGCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTCCACATCCa < 1:2548265/67‑1 (MQ=255)
aaTGGCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTCCACATCCa < 1:2383769/67‑1 (MQ=255)
aaTGGCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTCCACATCCa < 1:151202/67‑1 (MQ=255)
aaTGGCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTCCACATCCa < 1:2309066/67‑1 (MQ=255)
ggCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCAt > 1:680898/1‑69 (MQ=255)
ggCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCAt > 1:3258151/1‑69 (MQ=255)
ggCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCAt > 1:2114615/1‑69 (MQ=255)
ggCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCAt > 1:2680706/1‑69 (MQ=255)
ggCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCAt > 1:1280748/1‑69 (MQ=255)
ggCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCAt > 1:902324/1‑69 (MQ=255)
aGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTcc < 1:1835266/69‑1 (MQ=255)
aGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTcc < 1:1965688/69‑1 (MQ=255)
aGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTcc < 1:1108737/69‑1 (MQ=255)
cATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCAcgcg > 1:1715452/1‑65 (MQ=255)
cATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTAc > 1:796875/1‑69 (MQ=255)
cATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTAc > 1:1254836/1‑69 (MQ=255)
cATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTAc > 1:1218070/1‑69 (MQ=255)
cATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTAc > 1:2970540/1‑69 (MQ=255)
cATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTAc > 1:3433805/1‑69 (MQ=255)
cATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTAc > 1:2171088/1‑69 (MQ=255)
cATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTAc > 1:330057/1‑69 (MQ=255)
cATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTAc > 1:3187586/1‑69 (MQ=255)
cATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTAc > 1:1882575/1‑69 (MQ=255)
cATACCGCAGAACAGATCCAGAACGCGATCTTCAGCTTGCACAt > 1:1171626/1‑44 (MQ=38)
cGCAGAACAGATCCAGTACGCGATCTTCAGGTTCCACATCCa < 1:2035521/42‑1 (MQ=255)
cAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:2226747/69‑1 (MQ=255)
cAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:3208038/69‑1 (MQ=255)
cAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:328782/69‑1 (MQ=255)
cAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:2602291/69‑1 (MQ=255)
cAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:1827694/69‑1 (MQ=255)
cAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:268530/69‑1 (MQ=255)
aGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:1804816/68‑1 (MQ=255)
aGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:2695644/68‑1 (MQ=255)
aGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:2826666/68‑1 (MQ=255)
tCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTcaca > 1:2602469/1‑69 (MQ=255)
tCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTcaca > 1:1624337/1‑69 (MQ=255)
gTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCg < 1:2121798/69‑1 (MQ=255)
gTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCg < 1:2042004/69‑1 (MQ=255)
cgcgATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:300710/58‑1 (MQ=255)
cgATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCTCTACCATTTTTTGGTTCACACCCGCATTg < 1:2519852/69‑1 (MQ=255)
cgATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCTCTACCATTTTTTGGTTCACACCCGCATTg < 1:2515780/69‑1 (MQ=255)
cgATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTg < 1:1506049/69‑1 (MQ=255)
cgATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTg < 1:2263245/69‑1 (MQ=255)
cgATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTg < 1:3124318/69‑1 (MQ=255)
cgATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTg < 1:2072153/69‑1 (MQ=255)
tCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:1574612/53‑1 (MQ=255)
cTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGAcc > 1:2771824/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTAcc > 1:1133627/1‑38 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTg > 1:662308/1‑67 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTg > 1:1031326/1‑67 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTg > 1:3152075/1‑67 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTg > 1:2880100/1‑67 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTg > 1:2758002/1‑67 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:3220960/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:3212404/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:3079580/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:3434285/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:3008571/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:2742140/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:1720517/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:697053/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:1640269/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:1424200/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:908470/1‑68 (MQ=255)
gCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:3378823/43‑1 (MQ=255)
|
GTCGCCAATGGCAGTGTAAAGTTGCCCATACCGCAGAACAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGA > minE/1883566‑1883691
|
| 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
