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 |
552,675 |
T→C |
42.6% |
S283S (TCA→TCG) |
ybiW ← |
predicted pyruvate formate lyase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 552,675 | 0 | T | C | 42.6%
| 31.4
/ 83.6
| 108 | S283S (TCA→TCG) | ybiW | predicted pyruvate formate lyase |
| Reads supporting (aligned to +/- strand): ref base T (40/22); new base C (16/30); total (56/52) |
| Fisher's exact test for biased strand distribution p-value = 3.34e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 108 total aligned reads displayed.
CAACGTCGCGGCGATAGTACGGGTAGAGATACTGGTCCATACGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGC > minE/552620‑552729
|
cAACGTCGCGGCGATAGTACGGGTAGAGATACTGGTCCATACGACCAAACGATACTGAGt > 1:2256545/1‑60 (MQ=255)
cAACGTCGCGGCGATAGTACGGGTAGAGATACTGGTCCATACGACCAAACGATACTGAGTGAc > 1:2423510/1‑63 (MQ=255)
tcacggcgATAGTATGGATAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCg < 1:268360/66‑1 (MQ=255)
tcacggcgATAGTATGGATAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCg < 1:3369700/66‑1 (MQ=255)
tcacggcgATAGTATGGATAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCg < 1:2002041/66‑1 (MQ=255)
tcacggcgATAGTATGGATAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCg < 1:2015891/66‑1 (MQ=255)
tcacggcgATAGTATGGATAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCg < 1:3362800/66‑1 (MQ=255)
tcacggcgATAGTATGGATAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCg < 1:3044464/66‑1 (MQ=255)
tcacggcgATAGTATGGATAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCg < 1:3029292/66‑1 (MQ=255)
tcacggcgATAGTATGGATAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCg < 1:2955335/66‑1 (MQ=255)
tcacggcgATAGTATGGATAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCg < 1:2676572/66‑1 (MQ=255)
tcacggcgATAGTATGGATAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCg < 1:281923/66‑1 (MQ=255)
tcacggcgATAGTATGGATAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCg < 1:2578753/66‑1 (MQ=255)
cgcgGCGATAGTACGGGTAGAGATACTGGTCCATACGACCAAACGATACTGAGTGACCGTTAGATTCGa < 1:2949840/69‑1 (MQ=255)
cgcgGCGATAGTACGGGTAGAGATACTGGTCCATACGACCAAACGATACTGAGTGACCGTTAGATTCGa < 1:2306229/69‑1 (MQ=255)
cgcgGCGATAGTACGGGTAGAGATACTGGTCCATACGACCAAACGATACTGAGTGACCGTTAGATTCGa < 1:406181/69‑1 (MQ=255)
cgcgGCGATAGTACGGGTAGAGATACTGGTCCATACGACCAAACGATACTGAGTGACCGTTAGATTCGa < 1:1763854/69‑1 (MQ=255)
cacggcgATAGTATGGATAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCg < 1:2948374/66‑1 (MQ=255)
gcggcgATAGTACGGGTAGAGATACTGGTCCATACGACCAAACGATACTGAGTGACCGTTAGATTCGa < 1:1196037/68‑1 (MQ=255)
aCGGGTAGAGATACTGGTCCATACGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCa < 1:950838/69‑1 (MQ=255)
aCGGGTAGAGATACTGGTCCATACGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCa < 1:1888020/69‑1 (MQ=255)
gatAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCg > 1:2208319/3‑53 (MQ=255)
gatAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAAc > 1:2513221/3‑68 (MQ=255)
gatAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAAc > 1:3219208/3‑68 (MQ=255)
gatAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAAc > 1:3012177/3‑68 (MQ=255)
gatAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAAc > 1:296870/3‑68 (MQ=255)
gatAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAAc > 1:2420731/3‑68 (MQ=255)
gatAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAAc > 1:958896/3‑68 (MQ=255)
gatAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAAc > 1:1155044/3‑68 (MQ=255)
gatAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAAc > 1:1804718/3‑68 (MQ=255)
gatAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAAc > 1:1745328/3‑68 (MQ=255)
gatAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAAc > 1:3431826/3‑68 (MQ=255)
gatAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAAc > 1:389559/3‑68 (MQ=255)
gatAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAAc > 1:1582924/3‑68 (MQ=255)
gatAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAAc > 1:1390394/3‑68 (MQ=255)
gatAGAGATACTGGTCCATACGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAAc > 1:561734/3‑68 (MQ=255)
tAGAGATACTGGTCCATACGACCAAACGATACTGAGTGACCGTTAGATTCGa < 1:2958023/52‑1 (MQ=255)
aCTGGTCCATACGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGt > 1:268799/1‑69 (MQ=255)
aCTGGTCCATACGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGt > 1:596647/1‑69 (MQ=255)
aCTGGTCCATACGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGt > 1:1623187/1‑69 (MQ=255)
aCTGGTCCATACGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGt > 1:3430254/1‑69 (MQ=255)
ccATACGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAacac < 1:1479989/68‑1 (MQ=255)
ccATACGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAacac < 1:126678/68‑1 (MQ=255)
ccATACGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAacac < 1:1243625/68‑1 (MQ=255)
ccATACGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAacac < 1:2350015/68‑1 (MQ=255)
ccATACGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAacac < 1:2774433/68‑1 (MQ=255)
ccATACGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAacac < 1:1155881/68‑1 (MQ=255)
aCGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACATAGTTg < 1:814707/69‑1 (MQ=255)
aCGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACATAGTTg < 1:3372594/69‑1 (MQ=255)
aCGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACATAGTTg < 1:1139838/69‑1 (MQ=255)
aCGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACATAGTTg < 1:2737876/69‑1 (MQ=255)
aCGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACATAGTTg < 1:873739/69‑1 (MQ=255)
aCGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACATAGTTg < 1:2853311/69‑1 (MQ=255)
aCGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACATAGTTg < 1:64477/69‑1 (MQ=255)
aCGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACATAGTTg < 1:426258/69‑1 (MQ=255)
aCGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACATAGTTg < 1:2958077/69‑1 (MQ=255)
aCGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACATAGTTg < 1:262152/69‑1 (MQ=255)
aCGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACATAGTTg < 1:20421/69‑1 (MQ=255)
aCGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACATAGTTg < 1:2528551/69‑1 (MQ=255)
aCGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACATAGTTg < 1:1260063/69‑1 (MQ=255)
aCGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACATAGTTg < 1:2211186/69‑1 (MQ=255)
cGACCACACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:561/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGc > 1:3250831/1‑39 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGGAAAATCAACTGGATGAAGTAACACAGTTGc > 1:402252/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACt > 1:1399323/1‑49 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATTAAGTAACACAGTTGc > 1:1141903/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:1639856/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:1999193/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc < 1:1603225/69‑1 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:1551017/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc < 1:152304/69‑1 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:475243/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:1431530/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:805144/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:1225227/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:868577/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:1191110/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:1127211/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:976847/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:987803/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:1867285/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc < 1:2747210/69‑1 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:2634458/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:2548227/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:2535605/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:2475490/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:2438399/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:238163/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:2324609/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc < 1:2972266/69‑1 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc < 1:3029120/69‑1 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:2205789/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:3039106/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:2203189/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc < 1:2025790/69‑1 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:2716244/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:1830233/1‑69 (MQ=255)
cGACCAAACGATACTGAGTGACCGTTACATTCGATCTGCAAAATCAACTGGATCaa > 1:2887397/1‑56 (MQ=255)
cGACCAAACGATACTGAGTGACCGATAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGc > 1:2645767/1‑69 (MQ=255)
cGACCAAACGATACCGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACATAGTTg < 1:44431/68‑1 (MQ=255)
|
CAACGTCGCGGCGATAGTACGGGTAGAGATACTGGTCCATACGACCAAACGATACTGAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGC > minE/552620‑552729
|
| 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
