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 |
2,675,212 |
G→C |
52.9% |
S87S (TCC→TCG) |
gntY ← |
predicted gluconate transport associated protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,675,212 | 0 | G | C | 52.9%
| 6.9
/ 78.4
| 68 | S87S (TCC→TCG) | gntY | predicted gluconate transport associated protein |
| Reads supporting (aligned to +/- strand): ref base G (7/25); new base C (19/17); total (26/42) |
| Fisher's exact test for biased strand distribution p-value = 1.24e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCAGCGGTGCATCGTCTGCCACTTTACGCATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATCTTCCAGGTATGGTGCGCTTAACTC > minE/2675151‑2675274
|
tCAGCGGTGCATCGTCTGCCACTTTACGCATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAAccc < 1:538016/68‑1 (MQ=255)
tCAGCGGTGCATCGTCTGCCACTTTACGCATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAAccc < 1:509645/68‑1 (MQ=255)
tCAGCGGTGCATCGTCTGCCACTTTACGCATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAAccc < 1:1930203/68‑1 (MQ=255)
tCAGCGGTGCATCGTCTGCCACTTTACGCATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAAccc < 1:1319068/68‑1 (MQ=255)
tCAGCGGTGCATCGTCTGCCACTTTACGCATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAAccc < 1:2642276/68‑1 (MQ=255)
tCAGCGGTGCATCGTCTGCCACTTTACGCATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCa < 1:1956173/69‑1 (MQ=255)
tCAGCGGTGCATCGTCTGCCACTTTACGCATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCa < 1:2296864/69‑1 (MQ=255)
tCAGCGGTGCATCGTCTGCCACTTTACGCATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCa < 1:2556972/69‑1 (MQ=255)
tCAGCGGTGCATCGTCTGCCACTTTACGCATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCa < 1:1542603/69‑1 (MQ=255)
tCAGCGGTGCATCGTCTGCCACTTTACGCATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCa < 1:265218/69‑1 (MQ=255)
tCAGCGGTGCATCGGCTGCCACTTTACGCATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCa < 1:87586/69‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:2835651/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:2243344/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:2400887/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:2424146/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:2730767/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:1071363/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:2926157/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:3029231/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:469617/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:550283/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:617873/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:927629/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:1024157/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:1916666/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:1421565/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:1676440/62‑1 (MQ=255)
cagCCACTTTACGCATTTTGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGt < 1:1547720/62‑1 (MQ=255)
tACGCATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGAtct > 1:2828389/1‑69 (MQ=255)
cATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTg < 1:2133060/68‑1 (MQ=255)
cATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTg < 1:734159/68‑1 (MQ=255)
cATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTg < 1:1116449/68‑1 (MQ=255)
cATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTg < 1:3407570/68‑1 (MQ=255)
cATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTg < 1:2564706/68‑1 (MQ=255)
cATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTg < 1:1458141/68‑1 (MQ=255)
aTTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTATCAAAATCGATCTCTGCa < 1:888360/69‑1 (MQ=255)
aTTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTg < 1:309279/67‑1 (MQ=255)
aTTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCa < 1:539326/69‑1 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCAt > 1:1511469/1‑68 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCAt > 1:1318861/1‑68 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCAt > 1:1909103/1‑68 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:2889616/1‑69 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:966685/1‑69 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:955663/1‑69 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:2036987/1‑69 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:2248276/1‑69 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:1073158/1‑69 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:558374/1‑69 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:552767/1‑69 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:2325995/1‑69 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:2725638/1‑69 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:1194917/1‑69 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:1914720/1‑69 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:3162576/1‑69 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:2061941/1‑69 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:2655202/1‑69 (MQ=255)
tttGGCGTTAGGCGCTTTCAGCGTCAGCTGCGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATc > 1:2612127/1‑69 (MQ=255)
ttCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATCTTCCAgg < 1:2786161/69‑1 (MQ=255)
ttCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATCTTCCAgg < 1:1185204/69‑1 (MQ=255)
ttCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATCTTCCAgg < 1:692650/69‑1 (MQ=255)
ttCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATCTTCCAgg < 1:1955076/69‑1 (MQ=255)
ttCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATCTTCCAgg < 1:83444/69‑1 (MQ=255)
cGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATCTTCCAGGTa > 1:3318156/1‑69 (MQ=255)
cGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATCTTCCAGGTa > 1:3116670/1‑69 (MQ=255)
cGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATCTTCCAGGTa > 1:1360174/1‑69 (MQ=255)
aaCTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATCTTCCAGGTATGGTGCGCTTAACtc > 1:3240870/1‑68 (MQ=255)
aaCTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATCTTCCAGGTATGGTGCGCTTAACtc > 1:3133174/1‑68 (MQ=255)
aaCTGGGAACCAAACTGGTCGGTAACAAAATCGAtctc > 1:1105884/1‑38 (MQ=255)
|
TCAGCGGTGCATCGTCTGCCACTTTACGCATTTTGGCGTTCGGGGCTTTCAGCGTTAACTGGGAACCCAACTGGTCGGTAACAAAATCGATCTCTGCATCTTCCAGGTATGGTGCGCTTAACTC > minE/2675151‑2675274
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
