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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,493,839 |
A→C |
66.7% |
intergenic (+221/‑154) |
gyrB → / → ibpA |
DNA gyrase, subunit B/heat shock chaperone |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,493,839 | 0 | A | C | 66.7%
| 80.8
/ 40.5
| 57 | intergenic (+221/‑154) | gyrB/ibpA | DNA gyrase, subunit B/heat shock chaperone |
| Reads supporting (aligned to +/- strand): ref base A (7/12); new base C (24/14); total (31/26) |
| Fisher's exact test for biased strand distribution p-value = 9.07e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.55e-01 |
TTTTATTTCTGCAATCCGCAATTATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGAAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGTAGCCGATGAG > minE/2493777‑2493908
|
ttttATTTCTGCAATCCGCAATTATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGaaaaaaa < 1:5524626/69‑1 (MQ=255)
tttCTGCAATCCGCAATTATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGAAAAAAAAAg < 1:304583/67‑1 (MQ=255)
cAATCCGCAATTATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGAAAAAAAAAGTCCGCTGAt > 1:4766206/1‑70 (MQ=255)
gCAATTATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGaaaaaaa < 1:92813/52‑1 (MQ=255)
gCAATTATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGaaaaaaa < 1:3406183/52‑1 (MQ=255)
gCAATTATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGaaaaaaa < 1:4902129/52‑1 (MQ=255)
cAATTATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGAAAAAAAAAGTCCGCTGATAAGGCtt > 1:3364734/1‑70 (MQ=255)
cAATTATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGAAAAAAAAAGTCCGCTGATAAGGCtt > 1:746169/1‑70 (MQ=255)
aaTTATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGaaaaaaa < 1:5593102/50‑1 (MQ=255)
aaTTATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGaaaaaaa < 1:5646675/50‑1 (MQ=255)
ttATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGaaaaaaaaa > 1:3743267/1‑50 (MQ=255)
ttATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGaaaaaaaaa > 1:4246022/1‑50 (MQ=255)
ttATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGaaaaaaa < 1:4793362/48‑1 (MQ=255)
ttATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGAAAAAAAAAGTCCGCTGATAAGGCTTGaaa < 1:5258143/71‑1 (MQ=255)
atcatcCCGCAAATCTACTATGCAATAGACCATAAACTGAAAAAAAAAGTCCGCTGATAAGGCTTGAAAAg > 1:2047740/1‑71 (MQ=255)
atcatcCCGCAAATCTACTATGCAATAGACCATAAACTGAAAAAAAAAGTCCGATGATAAGGCTTGAAAAg > 1:403524/1‑71 (MQ=255)
gCAAATCTACTATGCAATAGACCATAAACTGAAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTc < 1:3809274/71‑1 (MQ=255)
aTCTACTATGCAATAGACCATAAACTGAAAAAAAAAGTCCGCTGAt < 1:4985623/46‑1 (MQ=255)
tactaTGCAATAGACCATAAACTGAAAAAAAAAGTCCGCt < 1:3912234/40‑1 (MQ=255)
tctaTGCAATAGACCATAAACTGCAAAAAAAAGTCCGCTGAt < 1:755670/41‑1 (MQ=39)
tctaTGCAATAGACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTg < 1:4627031/49‑1 (MQ=255)
ctaTGCAATAGACCATAAACTGAAAAAAAAAGTcc > 1:2019454/1‑35 (MQ=255)
ctaTCCAATAGACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCAtt < 1:2535585/60‑1 (MQ=255)
taTGCAATAGACCATAAACTGCAAAAAAAAGTCCGCt < 1:2071256/37‑1 (MQ=255)
taTGCAATAGACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGaaaa > 1:940286/1‑52 (MQ=255)
taTGCAATAGACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGaaaa > 1:4678241/1‑52 (MQ=255)
taTGCAATAGACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGaaaa > 1:1630552/1‑52 (MQ=255)
taTGCAATAGACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCAtt > 1:1796049/1‑71 (MQ=255)
tGCAATAGACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGc > 1:4875959/1‑43 (MQ=255)
tGCAATAGACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGaaa > 1:2337316/1‑49 (MQ=255)
tGCAATAGACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCAttt > 1:2201665/1‑58 (MQ=255)
tGCAATAGACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCAttt > 1:2624954/1‑58 (MQ=255)
tGCAATAGACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCAtttt > 1:2403760/1‑71 (MQ=255)
tGCAATAGACCATAAACTGAAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCAtttt < 1:1637716/71‑1 (MQ=255)
tGCAATAGACCATAAACTGAAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCAtttt < 1:2475266/71‑1 (MQ=255)
gCAATAGACCATAAACTGAAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCAtttt < 1:123907/70‑1 (MQ=255)
tAGACCATAAACTGCAAAAAAAAGTGCGCTGATAAGGCTTGAAAAGTTCATTTcc > 1:4811540/1‑55 (MQ=255)
aGACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGaaaa > 1:655484/1‑44 (MQ=255)
aGACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAg > 1:3376410/1‑45 (MQ=255)
aGACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGt > 1:899895/1‑46 (MQ=255)
gACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACAt > 1:2698320/1‑69 (MQ=255)
gACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCg > 1:4049814/1‑71 (MQ=255)
gACCATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCg < 1:351272/71‑1 (MQ=255)
gACCATAAACTGAAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTc < 1:3126821/47‑1 (MQ=255)
aCCATAAACTGAAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTc < 1:2879620/46‑1 (MQ=255)
ccATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTcc < 1:4765338/51‑1 (MQ=255)
cATAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGTAg > 1:2865444/1‑71 (MQ=255)
aTAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCAt < 1:5141393/45‑1 (MQ=255)
aTAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTc < 1:2597/48‑1 (MQ=255)
tAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTc < 1:5494310/47‑1 (MQ=255)
tAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGa > 1:215284/1‑51 (MQ=255)
tAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGa > 1:544089/1‑51 (MQ=255)
tAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGTAGcc > 1:4767103/1‑71 (MQ=255)
tAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGTAGcc > 1:2445544/1‑71 (MQ=255)
tAAACTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGTAGcc < 1:610029/71‑1 (MQ=255)
tAAACTGAAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGTAGcc < 1:5076355/71‑1 (MQ=255)
aaaCTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGt > 1:5436634/1‑66 (MQ=255)
aaaCTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGt > 1:4879446/1‑66 (MQ=255)
aaaCTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGt > 1:1320467/1‑66 (MQ=255)
aaaCTGAAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGTAGcc > 1:3485064/1‑70 (MQ=255)
aaCTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGTAGCCGa > 1:2564465/1‑71 (MQ=255)
aCTGAAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGTAGCCGAt < 1:3815779/71‑1 (MQ=255)
cTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTc < 1:1344305/38‑1 (MQ=255)
cTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTc < 1:86518/38‑1 (MQ=255)
cTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGTAGCCGATg < 1:5609190/71‑1 (MQ=255)
cTGCAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGTAGCCGATg < 1:2717303/71‑1 (MQ=255)
aaaaaaaaaGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGTAGCCGATGAg < 1:5433787/70‑1 (MQ=255)
aaaaaaaaaGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGTAGCCGATGAg > 1:3093515/1‑70 (MQ=255)
|
TTTTATTTCTGCAATCCGCAATTATCATCCCGCAAATCTACTATGCAATAGACCATAAACTGAAAAAAAAAGTCCGCTGATAAGGCTTGAAAAGTTCATTTCCAGACCCATTTTTACATCGTAGCCGATGAG > minE/2493777‑2493908
|
| 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
