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 F50 I1 R1
|
170 |
39.5 |
1266514 |
99.2% |
1256381 |
150.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,647,150 |
G→A |
A59V (GCT→GTT) |
pbpC ← |
penicillin‑insensitive murein repair transglycosylase; inactive transpeptidase domain protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,647,150 | 0 | G | A | 96.3%
| 97.6
/ ‑3.8
| 27 | A59V (GCT→GTT) | pbpC | penicillin‑insensitive murein repair transglycosylase; inactive transpeptidase domain protein |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (14/12); total (14/13) |
| Fisher's exact test for biased strand distribution p-value = 4.81e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.03e-01 |
GAGATCTTGCCATGCTGCGCGCGCCACCGAGAATGGATTCACCCCCGGATGCTTCCAGAACCAGCGATCTTCATAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAGCATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTAGAGGCCAGAGTTTATCTGCTCCCCACGCTGCAAGAAAAAGGAGAAAGGGCGCGGCTGCCAACGTTATCC > NC_000913/2647005‑2647294
|
gagaTCTTGCCATGCTGCGCGCGCCACCGAGAATGGATTCACCCCCGGATGCTTCCAGAACCAGCGATCTTCATAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATc < 1:136662/150‑1 (MQ=255)
tgcGCGCGCCACCGAGAATGGATTCACCCCCGGATGCTTCCAGAACCAGCGATCTTCATAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAgc > 1:414095/1‑151 (MQ=255)
gaATGGATTCACCCCCGGATGCTTCCAGAACCAGCGATCTTCATAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTgc > 2:128131/1‑151 (MQ=255)
gaATGGATTCACCCCCGGATGCTTCCAGAACCAGCGATCTTCATAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTgc < 1:45787/151‑1 (MQ=255)
ggATGCTTCCAGAACCAGCGATCTTCATAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTg > 1:153762/1‑151 (MQ=255)
tGCTTCCAGAACCAGCGATCTTCATAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCgg > 1:325365/1‑151 (MQ=255)
tCCAGAACCAGCGATCTTCATAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAGCATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGAt < 2:152265/150‑1 (MQ=255)
aGAACCAGCGATCTTCATAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGAc > 2:251668/1‑151 (MQ=255)
aGCGATCTTCATAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATg > 2:422050/1‑151 (MQ=255)
tCATAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCa < 2:112171/145‑1 (MQ=255)
tCATAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCa < 1:112525/145‑1 (MQ=255)
cATAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTa < 2:527636/150‑1 (MQ=255)
aTAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGt > 1:49451/1‑148 (MQ=255)
tAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTag > 1:630770/1‑149 (MQ=255)
cAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTAGAGGCCAGAGt > 2:489972/1‑151 (MQ=255)
aGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTAGAGGCCAGAGtt < 2:439169/151‑1 (MQ=255)
tCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTAGAGGCCAGAGTTTATCt < 1:378196/150‑1 (MQ=255)
tAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTAGAGGCCAGAGTTTATCTGCTcccc > 2:73306/1‑151 (MQ=255)
agaAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTAGAGGCCAGAGTTTATCTGCTCCCCACGCTGCa < 1:349424/151‑1 (MQ=255)
tCGATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTAGAGGCCAGAGTTTATCTGCTCCCCACGCTGCAAGaaaaa < 1:257227/148‑1 (MQ=255)
gATTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTAGAGGCCAGAGTTTATCTGCTCCCCACGCTGCAAGAAAAAgg > 1:586718/1‑148 (MQ=255)
aTTGTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTAGAGGCCAGAGTTTATCTGCTCCCCACGCTGCAAGAAAAAGgaga > 2:115547/1‑150 (MQ=255)
gTTACCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGGCCACTCGTGCGGGGTTGACTTCATGCAGCGGTAGAGGCCAGAGTTTATCTGCTCCCCACGCTGCAAGAAAAAGGAGAAAg < 1:11059/150‑1 (MQ=255)
aCCGGATAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTAGAGGCCAGAGTTTATCTGCTCCCCACGCTGCAAGAAAAAGGAGAAAGGgc < 1:409509/150‑1 (MQ=255)
aTAACGCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTAGAGGCCAGAGTTTATCTGCTCCCCACGCTGCAAGAAAAAGGAGAAAGGGCGCGGCt < 2:422336/151‑1 (MQ=255)
gCCAGATGCCGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTAGAGGCCAGAGTTTATCTGCTCCCCACGCTGCAAGAAAAAGGAGAAAGGGCGCGGCTGCCa > 1:289839/1‑150 (MQ=255)
cGTCAACATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTAGAGGCCAGAGTTTATCTGCTCCCCACGCTGCAAGAAAAAGGAGAAAGGGCGCGGCTGCCAACGTTATcc > 2:430971/1‑150 (MQ=255)
|
GAGATCTTGCCATGCTGCGCGCGCCACCGAGAATGGATTCACCCCCGGATGCTTCCAGAACCAGCGATCTTCATAATTGATCAGCGCTTCAAGGTAACGTGGAGAAACATCTTCGATTGTTACCGGATAACGCCAGATGCCGTCAGCATCGGCGAAGCGCCAGAGCGGCGTACCATCCTGCGCCACGACCACTCGTGCGGGATTGACTTCATGCAGCGGTAGAGGCCAGAGTTTATCTGCTCCCCACGCTGCAAGAAAAAGGAGAAAGGGCGCGGCTGCCAACGTTATCC > NC_000913/2647005‑2647294
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
