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 |
2,954,513 |
G→A |
63.5% |
P13P (CCG→CCA) |
rimI → |
acetylase for 30S ribosomal subunit protein S18 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,954,513 | 0 | G | A | 63.5%
| 34.1
/ 37.9
| 63 | P13P (CCG→CCA) | rimI | acetylase for 30S ribosomal subunit protein S18 |
| Reads supporting (aligned to +/- strand): ref base G (16/7); new base A (17/23); total (33/30) |
| Fisher's exact test for biased strand distribution p-value = 6.57e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.30e-01 |
CGTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGCCCACGCCTTTCCGTGGAGTGAAAAAACG > minE/2954451‑2954567
|
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAgctgct < 1:3297299/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:971409/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:2365717/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:2406522/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:2078817/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:2506051/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:1750366/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:257447/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:1657533/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:2677809/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:1649783/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:2705997/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:1559800/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:3115654/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:1528990/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:418529/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:1298758/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:515671/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:1250289/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:555147/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:598658/69‑1 (MQ=255)
cgTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCt < 1:1157511/69‑1 (MQ=255)
tGGCAACAAATTTTCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGTCt < 1:332150/64‑1 (MQ=255)
ggCAACAAATTTGCACATATGAACACGATTTCTTCCCTCTAAACGACTGATTTACCGGCGGCTTACca < 1:2308998/68‑1 (MQ=255)
ggCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACca < 1:1613751/68‑1 (MQ=255)
ggCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACca < 1:481949/68‑1 (MQ=255)
aaaTTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGa > 1:1070444/1‑68 (MQ=255)
aaaTTTGCACATATGAACACGATTTCTTCCCTCGAAACGAATGATTTACCGGCGGCTTACCACATTGa > 1:1467647/1‑68 (MQ=255)
caTATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGcc < 1:2366870/69‑1 (MQ=255)
caTATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGcc < 1:2372810/69‑1 (MQ=255)
tatGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGGGcc > 1:3063500/1‑67 (MQ=255)
tatGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGcc > 1:2290443/1‑67 (MQ=255)
tatGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGcc > 1:1002957/1‑67 (MQ=255)
tatGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGcc > 1:537672/1‑67 (MQ=255)
tatGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGcc > 1:1278550/1‑67 (MQ=255)
tatGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGcc > 1:490430/1‑67 (MQ=255)
tatGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGcc > 1:432022/1‑67 (MQ=255)
tatGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGcc > 1:1336430/1‑67 (MQ=255)
tatGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGcc > 1:2201821/1‑67 (MQ=255)
tatGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGcc > 1:2180656/1‑67 (MQ=255)
tatGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGcc > 1:2482225/1‑67 (MQ=255)
tatGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGcc > 1:2172391/1‑67 (MQ=255)
atGAATACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGCCCAc > 1:487371/1‑69 (MQ=255)
atGAACCCGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGcc > 1:673597/1‑66 (MQ=255)
atGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGCCCAc > 1:1654222/1‑69 (MQ=255)
atGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGCCCAc > 1:76451/1‑69 (MQ=255)
atGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGCCCAc > 1:701419/1‑69 (MQ=255)
atGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGCCCAc > 1:624668/1‑69 (MQ=255)
atGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGCCCAc > 1:1213617/1‑69 (MQ=255)
atGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGCCCAc > 1:241438/1‑69 (MQ=255)
atGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGCCCAc > 1:398746/1‑69 (MQ=255)
atGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGCCCAc > 1:1482652/1‑69 (MQ=255)
atGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGCCCAc > 1:3279365/1‑69 (MQ=255)
atGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGCCCAc > 1:155596/1‑69 (MQ=255)
atGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGCCCAc > 1:1932683/1‑69 (MQ=255)
atGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGCCCAc > 1:2838685/1‑69 (MQ=255)
atGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGCCCAc > 1:1598173/1‑69 (MQ=255)
atGAACACGATTTCTTCCCTCGAAACGACTGATTTACCAGCGGCTTACCACATTGAACAACGCGCCCAc > 1:1687329/1‑69 (MQ=255)
atGAACACGATTTCTTCCCTCGAAACGACTGAATTACCAGCGGCATACCCCATAGAACAAcg > 1:2894708/1‑62 (MQ=255)
tGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTAGCACATTGAACAACGCGCCCACg > 1:2404198/1‑69 (MQ=255)
tGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGCCCACg > 1:224556/1‑69 (MQ=255)
aCGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGCCCACGCCTTTCCGTGTAGTGAAAAAACg < 1:1232725/69‑1 (MQ=255)
aCGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGCCCACGCCTTTCCGTGGAGTGAAAAAACg < 1:1310226/69‑1 (MQ=255)
|
CGTTATGGCAACAAATTTGCACATATGAACACGATTTCTTCCCTCGAAACGACTGATTTACCGGCGGCTTACCACATTGAACAACGCGCCCACGCCTTTCCGTGGAGTGAAAAAACG > minE/2954451‑2954567
|
| 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
