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 |
2,263,269 |
T→C |
44.9% |
Q80Q (CAA→CAG) |
rplA ← |
50S ribosomal subunit protein L1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,263,269 | 0 | T | C | 44.9%
| 14.1
/ 73.9
| 89 | Q80Q (CAA→CAG) | rplA | 50S ribosomal subunit protein L1 |
| Reads supporting (aligned to +/- strand): ref base T (24/25); new base C (19/21); total (43/46) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.32e-01 |
CAGCCAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGTTGCACCACG > minE/2263205‑2263331
|
cAGCCAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTgg > 1:3060086/1‑68 (MQ=255)
cAGCCAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTgg > 1:3228753/1‑68 (MQ=255)
cAGCCAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTgg > 1:501751/1‑68 (MQ=255)
cAGCCAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTgg > 1:1722264/1‑68 (MQ=255)
cAGCCAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTgg > 1:1642942/1‑68 (MQ=255)
cAGCCAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTgg > 1:1377808/1‑68 (MQ=255)
cAGCCAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTgg > 1:1227692/1‑68 (MQ=255)
cAGCCAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTg > 1:1050826/1‑67 (MQ=255)
cAGCCAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTg > 1:353336/1‑67 (MQ=255)
cAGCCAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGAGTTTGCACCTTgg > 1:1090727/1‑68 (MQ=255)
ccAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTa < 1:634333/68‑1 (MQ=255)
cAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTaaa < 1:93831/69‑1 (MQ=255)
cAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTaaa < 1:556559/69‑1 (MQ=255)
cAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTaaa < 1:599145/69‑1 (MQ=255)
cAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTaaa < 1:2322458/69‑1 (MQ=255)
cAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTaaa < 1:1792361/69‑1 (MQ=255)
cAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTaaa < 1:1871894/69‑1 (MQ=255)
cAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTaaa < 1:1381561/69‑1 (MQ=255)
cAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTaaa < 1:3244365/69‑1 (MQ=255)
cAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTaaa < 1:822340/69‑1 (MQ=255)
aGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGTGTa < 1:381432/66‑1 (MQ=255)
tCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACg > 1:3395368/1‑69 (MQ=255)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:1954318/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:527564/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:1287770/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:1974849/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:1174630/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:2326567/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:2381610/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:2518060/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:351930/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:3351404/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:1947676/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:1341713/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:822361/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:1406386/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:819446/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:782693/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:1510994/1‑66 (MQ=38)
ccATACCTACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:1197461/1‑66 (MQ=38)
ccATACATACCAGTTCAGCACCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCCTGGGTAAATACgg > 1:4728/1‑66 (MQ=37)
cctaccAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCga > 1:2338463/1‑69 (MQ=255)
cctaccAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCga > 1:235917/1‑69 (MQ=255)
cctaccAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCga > 1:3020236/1‑69 (MQ=255)
cctaccAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCga > 1:2417953/1‑69 (MQ=255)
cctaccAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCga > 1:2970115/1‑69 (MQ=255)
cctaccAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCga > 1:1029714/1‑69 (MQ=255)
cctaccAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCga > 1:1639735/1‑69 (MQ=255)
cctaccAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCga > 1:1699078/1‑69 (MQ=255)
cctaccAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCga > 1:2589711/1‑69 (MQ=255)
cctaccAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCga > 1:321082/1‑69 (MQ=255)
cctaccAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCga > 1:1790761/1‑69 (MQ=255)
cctaccAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCga > 1:1898423/1‑69 (MQ=255)
aGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCgaacgg < 1:193650/67‑1 (MQ=255)
aGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCgaacgg < 1:2730652/67‑1 (MQ=255)
aGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCgaacgg < 1:1206960/67‑1 (MQ=255)
aGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCgaacgg < 1:1667336/67‑1 (MQ=255)
gcgcCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCGAACGGAACGGcc < 1:2482362/68‑1 (MQ=255)
gcgcCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCGAACGGAACGGcc < 1:1321310/68‑1 (MQ=255)
gcgcCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCGAACGGAACGGcc < 1:2208872/68‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:3114096/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:1170789/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:829836/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:649385/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:16967/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:1740841/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:207667/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:513702/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:2189332/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:432679/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:39614/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:2669841/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:2869215/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:2877345/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:3345973/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:3066005/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:3187385/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:3264117/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:2906126/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGtt < 1:2924595/69‑1 (MQ=255)
tCAGCGTTTGCACCCTGGGTAAATACGGCTACGCGAACGGAACGGCCAGCACCGTGCGGCAGTACAGtt < 1:2472345/69‑1 (MQ=255)
gCGTTTGCACCTTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGTTg < 1:1496767/67‑1 (MQ=255)
tttGCACCTTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGTTGcacca < 1:2899949/69‑1 (MQ=255)
tttGCACCTTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGTTGcacca < 1:972567/69‑1 (MQ=255)
tttGCACCTTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGTTGcacca < 1:1211087/69‑1 (MQ=255)
tttGCACCTTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGTTGcacca < 1:556595/69‑1 (MQ=255)
tttGCACCTTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGTTGcacca < 1:2579434/69‑1 (MQ=255)
ttGCACCTTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGTTGcacca < 1:1472681/68‑1 (MQ=255)
tGCACCTTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACAGTGCGGCAGTACAGTTGCACCacg > 1:1768427/1‑69 (MQ=255)
|
CAGCCAGATCTTCCATACCTACCAGTTCTGCGCCTGCAGCTTTAGCAGCTTCAGCGTTTGCACCTTGGGTAAATACGGCTACGCGAACGGAACGGCCAGTACCGTGCGGCAGTACAGTTGCACCACG > minE/2263205‑2263331
|
| 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
