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 |
1,534,073 |
G→C |
33.3% |
V72V (GTG→GTC) |
yfcN → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,534,073 | 0 | G | C | 33.3%
| 84.0
/ 64.4
| 84 | V72V (GTG→GTC) | yfcN | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (25/31); new base C (21/7); total (46/38) |
| Fisher's exact test for biased strand distribution p-value = 1.07e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.53e-01 |
GCAGGCTGATGCCAGCCATTATTTCTCCGATGAGTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTGCGCCGTGGCGAT > minE/1534007‑1534130
|
acAGGCCGATGCCAGCCACTATTTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa < 1:1514270/68‑1 (MQ=255)
acAGGCCGATGCCAGCCACTATTTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa < 1:2584306/68‑1 (MQ=255)
acAGGCCGATGCCAGCCACTATTTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa < 1:3106075/68‑1 (MQ=255)
cAGGCTGATGCCAGCCATTATTTCTCCGATGAGTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGaaa < 1:1333011/69‑1 (MQ=255)
cAGGCTGATGCCAGCCATTATTTCTCCGATGAGTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGaaa < 1:2199187/69‑1 (MQ=255)
aGGCCGATGCCAGCCACTATTTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa < 1:337820/67‑1 (MQ=255)
gCTGATGCCAGCCATTATTTCTCCGATGAGTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGAAatat < 1:1551542/69‑1 (MQ=255)
gCTGATGCCAGCCATTATTTCTCCGATGAGTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGAAatat < 1:1593718/69‑1 (MQ=255)
gCTGATGCCAGCCATTATTTCTCCGATGAGTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGAAatat < 1:2186767/69‑1 (MQ=255)
gCTGATGCCAGCCATTATTTCTCCGATGAGTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGAAatat < 1:2190577/69‑1 (MQ=255)
cTGATGCCAGCCATTATTTCTCCGATGAGTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGAAatat < 1:1869473/68‑1 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:2199969/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:2218377/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:2224488/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:3034801/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:3095200/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:2965009/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:2438598/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:1729705/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:2484031/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:2661651/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:1072854/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:383993/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:128879/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:973003/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:86578/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:1348984/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:1365489/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:1412495/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:583138/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:1485954/1‑49 (MQ=255)
attTTTCGGACGAATTTCAGCCATTATTGAATACCGAAGGTCCGGTCaa > 1:1149314/1‑49 (MQ=255)
attTCTCCGATGAGTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCa > 1:1433596/1‑69 (MQ=255)
attTCTCCGATGAGTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCa > 1:3201637/1‑69 (MQ=255)
attTCTCCGATGAGTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCa > 1:2737347/1‑69 (MQ=255)
attTCTCCGATGAGTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCa > 1:162614/1‑69 (MQ=255)
attTCTCCGATGAGTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCa > 1:1188298/1‑69 (MQ=255)
attTCTCCGATGAGTTTCAGCCGGTATTAAATACCGAAGGTCCGGTg > 1:2533740/1‑47 (MQ=255)
tcCGATGAGTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCa < 1:3212765/68‑1 (MQ=255)
gTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCg < 1:1695137/49‑1 (MQ=255)
ttCAGCCATTATTGAATACCGAAGGTCCGGTCAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCg < 1:1362953/68‑1 (MQ=255)
ttCAGCCATTATTGAATACCGAAGGTCCGGTCAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCg < 1:2707855/68‑1 (MQ=255)
ttCAGCCATTATTGAATACCGAAGGTCCGGTCAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCg < 1:3063179/68‑1 (MQ=255)
gCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:2565434/68‑1 (MQ=255)
gCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:2696780/68‑1 (MQ=255)
gCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:3074387/68‑1 (MQ=255)
gCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:1346116/68‑1 (MQ=255)
gCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:863651/68‑1 (MQ=255)
gCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:1429718/68‑1 (MQ=255)
gCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:1619204/68‑1 (MQ=255)
gCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:1615601/68‑1 (MQ=255)
ccGTTTTTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaagaa < 1:1154672/68‑1 (MQ=255)
ccGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaagaa < 1:2504684/68‑1 (MQ=255)
ccGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaagaa < 1:1779427/68‑1 (MQ=255)
ccGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaagaa < 1:2607978/68‑1 (MQ=255)
ccGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaagaa < 1:1510733/68‑1 (MQ=255)
ccGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:1113906/67‑1 (MQ=255)
attaAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTgcg > 1:3137782/1‑69 (MQ=255)
attaAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTgcg > 1:1200591/1‑69 (MQ=255)
attaAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTgcg > 1:774439/1‑69 (MQ=255)
attaAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTgcg > 1:709485/1‑69 (MQ=255)
attaAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTgcg > 1:1438039/1‑69 (MQ=255)
attaAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTgcg > 1:520871/1‑69 (MQ=255)
attaAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTgcg > 1:1788819/1‑69 (MQ=255)
attaAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTgcg > 1:1859499/1‑69 (MQ=255)
attaAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTgcg > 1:2282599/1‑69 (MQ=255)
attaAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTgcg > 1:259949/1‑69 (MQ=255)
attaAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTgcg > 1:281739/1‑69 (MQ=255)
attaAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTgcg > 1:2940162/1‑69 (MQ=255)
ccGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:2431136/54‑1 (MQ=255)
ccGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:1337647/54‑1 (MQ=255)
ccGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:2444715/54‑1 (MQ=255)
ccGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:525383/54‑1 (MQ=255)
ccGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:2833084/54‑1 (MQ=255)
ccGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:1954245/54‑1 (MQ=255)
ccGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCgaaga < 1:2316064/54‑1 (MQ=255)
ccGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTGCGCCGTGGCg > 1:2913065/1‑69 (MQ=255)
ccGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTGCGCCGTGGCg > 1:1538934/1‑69 (MQ=255)
ccGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTGCGCCGTGGCg > 1:2704072/1‑69 (MQ=255)
ccGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTGCGCCGTGGCg > 1:2048704/1‑69 (MQ=255)
ccGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTGCGCCGTGGCg > 1:2761621/1‑69 (MQ=255)
ccGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTGCGCCGTGGCg > 1:2147620/1‑69 (MQ=255)
ccGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTGCGCCGTGGCg > 1:1381999/1‑69 (MQ=255)
ccGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTGCGCCGTGGCg > 1:2282250/1‑69 (MQ=255)
gAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTGCGCCGTGGCGat < 1:760823/69‑1 (MQ=255)
|
GCAGGCTGATGCCAGCCATTATTTCTCCGATGAGTTTCAGCCGTTATTAAATACCGAAGGTCCGGTGAAATATGTTCGCCCGGATGTCAGCCATTTTGAGGCGAAGAAACTGCGCCGTGGCGAT > minE/1534007‑1534130
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
