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 |
247,122 |
A→G |
38.6% |
G255G (GGA→GGG) |
phoR → |
sensory histidine kinase in two‑component regulatory system with PhoB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 247,122 | 0 | A | G | 38.6%
| 42.0
/ 58.5
| 88 | G255G (GGA→GGG) | phoR | sensory histidine kinase in two‑component regulatory system with PhoB |
| Reads supporting (aligned to +/- strand): ref base A (32/22); new base G (19/15); total (51/37) |
| Fisher's exact test for biased strand distribution p-value = 8.26e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.20e-01 |
GGCGCGGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTGCTCAATGAAAAG > minE/247063‑247188
|
ggCGCGGTACGTGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGGTTGGTGAAg < 1:153763/69‑1 (MQ=255)
ggCGCGGTACGTGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGGTTGGTGAAg < 1:2203558/69‑1 (MQ=255)
ggCGCGGTACGTGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGGTTGGTGAAg < 1:1727722/69‑1 (MQ=255)
ggCGCGGTACGTGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGGTTGGTGAAg < 1:582741/69‑1 (MQ=255)
ggCGCGGTACGTGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGGTTGGTGAAg < 1:3176013/69‑1 (MQ=255)
ggCGCGGTACGTGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGGTTGGTGAAg < 1:218869/69‑1 (MQ=255)
ggCGCGGTACGTGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGGTTGGTGAAg < 1:1551202/69‑1 (MQ=255)
ggCGCGGTACGTGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGGTTGGTGAAg < 1:321733/69‑1 (MQ=255)
ggCGCGGTACGTGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGGTTGGTGAAg < 1:2407390/69‑1 (MQ=255)
ggCGCGGTACGTGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGGTTGGTGAAg < 1:2827922/69‑1 (MQ=255)
ggCGCGGTACGTGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGGTTGGTGAAg < 1:2814/69‑1 (MQ=255)
ggCGCGGTACGTGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGGTTGGTGAAg < 1:765335/69‑1 (MQ=255)
ggCGCGGTACGTGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGGTTGGTGAAg < 1:1358755/69‑1 (MQ=255)
ggCGCGGTACGTGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGGTTGGTGAAg < 1:2783829/69‑1 (MQ=255)
ggCGCGGTACGTGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGGTTGGTGAAg < 1:3372048/69‑1 (MQ=255)
gcgcGGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGc > 1:854417/1‑69 (MQ=255)
gcgcGGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGc > 1:70872/1‑69 (MQ=255)
gcgcGGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGc < 1:1234323/69‑1 (MQ=255)
cgcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGTAAGGACTGGTGAAGCa < 1:1292887/69‑1 (MQ=255)
cgcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCa > 1:2920086/1‑69 (MQ=255)
cgcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCa > 1:2204727/1‑69 (MQ=255)
cgcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCa < 1:3043479/69‑1 (MQ=255)
cgcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCa < 1:454124/69‑1 (MQ=255)
cgcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCa > 1:27221/1‑69 (MQ=255)
cgcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCa < 1:2006652/69‑1 (MQ=255)
cgcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCa < 1:390234/69‑1 (MQ=255)
cgcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCa < 1:875319/69‑1 (MQ=255)
cgcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCa > 1:1459577/1‑69 (MQ=255)
cgcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCa > 1:549984/1‑69 (MQ=255)
cgcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCa > 1:1603297/1‑69 (MQ=255)
cgcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCa > 1:62295/1‑69 (MQ=255)
cgcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCa < 1:1537113/69‑1 (MQ=255)
cgcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCa > 1:723100/1‑69 (MQ=255)
gcgGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCa < 1:741343/68‑1 (MQ=255)
gTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGaa < 1:2856434/69‑1 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTc > 1:2007464/1‑57 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:91767/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:717355/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:3175498/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:937745/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:3188503/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:33359/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:1580496/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:154124/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:2037781/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:2443665/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:2130987/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:2442808/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:1540857/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:2289204/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:1124279/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGc > 1:1601438/1‑69 (MQ=255)
cATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATT‑CTGACGCTGTCGAAAATAGAAGc > 1:1590969/1‑68 (MQ=255)
gCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGa < 1:1899049/68‑1 (MQ=255)
aGACCCAGCGGATGGAATGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGc < 1:2864919/69‑1 (MQ=255)
aGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGc < 1:367641/69‑1 (MQ=255)
aGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGc < 1:1662129/69‑1 (MQ=255)
aGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGc < 1:519741/69‑1 (MQ=255)
aGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGc < 1:2399160/69‑1 (MQ=255)
aGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGc < 1:2793/69‑1 (MQ=255)
gACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCa > 1:2021788/1‑69 (MQ=255)
gACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCa > 1:2302124/1‑69 (MQ=255)
cccAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCAtt < 1:3209255/69‑1 (MQ=255)
cccAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCAtt < 1:389637/69‑1 (MQ=255)
cccAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCAtt > 1:2906728/1‑69 (MQ=255)
cccAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCAtt < 1:2906998/69‑1 (MQ=255)
cccAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCAtt < 1:930353/69‑1 (MQ=255)
cccAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCAt > 1:3247783/1‑68 (MQ=255)
aGCGGATTGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:2817775/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGAc > 1:1809842/1‑61 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCAttt > 1:2658399/1‑67 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:1432990/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:1575246/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:1075289/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:1381065/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:1084069/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:2703112/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:583497/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:373527/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:1942559/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:3226410/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:3186397/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:2237159/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:3031379/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:3006595/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:296373/1‑68 (MQ=255)
aGCGGATGGAAGGGTTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTg > 1:2741779/1‑68 (MQ=255)
ggACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTGCTCAATGAAAAg < 1:2226701/69‑1 (MQ=255)
|
GGCGCGGTACGCGAAAAAGCGTTGCACACCATGCGCGAGCAGACCCAGCGGATGGAAGGACTGGTGAAGCAATTGCTGACGCTGTCGAAAATAGAAGCCGCACCGACGCATTTGCTCAATGAAAAG > minE/247063‑247188
|
| 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
