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 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,986,542 |
A→G |
19.9% |
L19L (TTG→CTG) |
arcA ← |
DNA‑binding response regulator in two‑component regulatory system with ArcB or CpxA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,986,542 | 0 | A | G | 19.9%
| 113.1
/ 23.7
| 54 | L19L (TTG→CTG) | arcA | DNA‑binding response regulator in two‑component regulatory system with ArcB or CpxA |
| Reads supporting (aligned to +/- strand): ref base A (20/23); new base G (3/7); total (24/30) |
| Fisher's exact test for biased strand distribution p-value = 4.84e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01 |
TCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGTCTGCATGTTTGCTACCTA > minE/2986473‑2986608
|
tCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAAc > 1:1225905/1‑71 (MQ=255)
tGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGtt < 1:1186229/71‑1 (MQ=255)
cATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTg < 1:1862607/70‑1 (MQ=255)
cATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGc > 1:1682736/1‑71 (MQ=255)
tttCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAGCGTGTTGCgt < 1:1810332/71‑1 (MQ=255)
tCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCgtg < 1:1560071/70‑1 (MQ=255)
gcgcCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTAc < 1:768294/71‑1 (MQ=255)
gcgcCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTAc < 1:209367/71‑1 (MQ=255)
gcgcCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTAc < 1:2093047/71‑1 (MQ=255)
cgcCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTAcc < 1:1286350/71‑1 (MQ=255)
tCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACt > 1:1913679/1‑70 (MQ=255)
tCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTc > 1:425315/1‑71 (MQ=255)
tGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCGt > 1:780400/1‑71 (MQ=255)
tGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCGt > 1:546437/1‑71 (MQ=255)
tCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAGCGTGTTGCGTGTTACCaa > 1:1731080/1‑64 (MQ=255)
tCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACgt < 1:99055/49‑1 (MQ=255)
cGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCg < 1:886853/67‑1 (MQ=255)
gCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACgtgt > 1:920760/1‑49 (MQ=255)
gCTTCGAAAACATCATAGCCTTACGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTc < 1:1782035/71‑1 (MQ=255)
ttCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTc < 1:225259/69‑1 (MQ=255)
cGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAAc > 1:1459172/1‑70 (MQ=255)
cGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAAc < 1:501526/70‑1 (MQ=255)
gAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGa < 1:963523/71‑1 (MQ=255)
aaaCATCATAGCCTTCCGCTTCGAAAATACTTTTCAGCGTGTTGCGTGTTACCAACTCGTCTTCa > 1:1143601/1‑65 (MQ=255)
catcatAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGa < 1:480807/71‑1 (MQ=255)
tcatAGCCTTCCGCTTCGAAAATACTTTTCAACgtgt > 1:2028752/1‑37 (MQ=255)
tcatAGCCTTCCGCTTCGAAAATACTTTTCAACgt < 1:2124758/35‑1 (MQ=255)
catAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCg < 1:1696955/53‑1 (MQ=255)
atAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCg < 1:1882693/52‑1 (MQ=255)
tAGCCTTCCGCTTCGAAAATACTTTTCAGCGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGaa < 1:984659/67‑1 (MQ=255)
gCCTTCCGCTTCGAAAATACTTTTCAGCGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCg < 1:1832618/71‑1 (MQ=255)
gCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCTTCTTCAACGATAAGAATGTGCg > 1:1439767/1‑71 (MQ=255)
cTTCCGCTTCGAAAATACTTTTCAGCGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCggg < 1:1010438/71‑1 (MQ=255)
ttCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAAtgtg < 1:2131307/66‑1 (MQ=255)
tCCGCTTCGAAAATACATTTCAACGTGTTGAGTCTTACCAACTCGTCTTCAACGATa > 1:1714275/1‑57 (MQ=255)
ccGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGt > 1:1385889/1‑70 (MQ=255)
ccGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGt > 1:2104864/1‑70 (MQ=255)
cGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGTCt < 1:2137459/71‑1 (MQ=255)
tCGAAAATACTTTTCATCGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGTCTGCAt > 1:2206205/1‑71 (MQ=255)
aaaaTACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGTCTGCATGtt < 1:1072759/71‑1 (MQ=255)
aaTACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGTCTGCATGTTTg > 1:877303/1‑71 (MQ=255)
aaTACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGTCTGCATGTTTg > 1:752308/1‑71 (MQ=255)
aTACTTTTCAGCGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGTCTGCATGTTTGc < 1:965826/71‑1 (MQ=255)
aTACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCtgg > 1:1438436/1‑57 (MQ=255)
aTACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCggg > 1:711192/1‑57 (MQ=255)
aTACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCggg > 1:397169/1‑57 (MQ=255)
aTACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGTCTGCATGttt > 1:1297955/1‑69 (MQ=255)
tACTTTTCAGCGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGTCTGCATGTTTGCt < 1:93667/71‑1 (MQ=255)
tACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGTCTGCATGTTTGCt < 1:1668564/71‑1 (MQ=255)
tACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGTCTGCATGTTTGCt < 1:1673173/71‑1 (MQ=255)
aCTTTTCAGCGTGTTGCGTGTTACCAACTCGTCTTCAACGAt > 1:129631/1‑42 (MQ=255)
ttttCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGTCTGCATGt < 1:983573/63‑1 (MQ=255)
ttCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGTCTGCATGTTTGc > 1:2114122/1‑65 (MQ=255)
tCAGCGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGTCTGCATGTTTGCTACCTa < 1:19054/70‑1 (MQ=255)
|
TCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTTACCAACTCGTCTTCAACGATAAGAATGTGCGGGGTCTGCATGTTTGCTACCTA > minE/2986473‑2986608
|
| 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
