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 |
2,052,180 |
T→G |
44.2% |
T87T (ACT→ACG) |
htrG → |
predicted signal transduction protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,052,180 | 0 | T | G | 44.2%
| 10.7
/ 82.1
| 77 | T87T (ACT→ACG) | htrG | predicted signal transduction protein |
| Reads supporting (aligned to +/- strand): ref base T (19/24); new base G (15/19); total (34/43) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATGCCCAGGTGAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACT > minE/2052119‑2052245
|
aTGCCCAGGTGAAAGACAGCTCTGGTCGTACTGCCTGGATCCCGTTGAAACAACTTAGCACGGAGCCaa > 1:2796511/1‑69 (MQ=255)
aTGCCCAGGTGAAAGACAGCTCTGGTCGTACTGCCTGGATCCCGTTGAAACAACTTAGCACGGAGCCaa > 1:214097/1‑69 (MQ=255)
aTGCCCAGGTGAAAGACAGCTCTGGTCGTACTGCCTGGATCCCGTTGAAACAACTTAGCACGGAGCCaa > 1:2296014/1‑69 (MQ=255)
aTGCCCAGGTGAAAGACAGCTCTGGTCGTACTGCCTGGATCCCGTTGAAACAACTTAGCACGGAGCCaa > 1:2379154/1‑69 (MQ=255)
aTGCCCAGGTGAAAGACAGCTCTGGTCGTACTGCCTGGATCCCGTTGAAACAACTTAGCACGGAGCCaa > 1:2430626/1‑69 (MQ=255)
aTGCCCAGGTGAAAGACAGCTCTGGTCGTACTGCCTGGATCCCGTTGAAACAACTTAGCACGGAGCCaa > 1:199249/1‑69 (MQ=255)
aTGCCCAGGTGAAAGACAGCTCTGGTCGTACTGCCTGGATCCCGTTGAAACAACTTAGCACGGAGCCaa > 1:195297/1‑69 (MQ=255)
aTGCCCAGGTGAAAGACAGCTCTGGTCGTACTGCCTGGATCCCGTTGAAACAACTTAGCACGGAGCCaa > 1:2983884/1‑69 (MQ=255)
aTGCCCAGGTGAAAGACAGCTCTGGTCGTACTGCCTGGATCCCGTTGAAACAACTTAGCACGGAGCCaa > 1:3324627/1‑69 (MQ=255)
aTGCCCAGGTGAAAGACAGCTCTGGTCGTACTGCCTGGATCCCGTTGAAACAACTTAGCACGGAGCCaa > 1:1604329/1‑69 (MQ=255)
aTGCCCAGGTGAAAGACAGCTCTGGTCGTACTGCCTGGATCCCGTTGAAACAACTTAGCACGGAGCCaa > 1:1038261/1‑69 (MQ=255)
aTGCCCAGGTGAAAGACAGCTCTGGTCGTACTGCCTGGATCCCGTTGAAACAACTTAGCACGGAGCCaa > 1:975038/1‑69 (MQ=255)
aTGCCCAGGTGAAAGACAGCTCTGGTCGTACTGCCTGGATCCCGTTGAAACAACTTAGCACGGAGCCaa > 1:496457/1‑69 (MQ=255)
aTGCCCAGGTGAAAGACAGCTCTGGTCGTACTGCCTGGATCCCGTTGAAACAACTTAGCACGGAGCCa > 1:1968061/1‑68 (MQ=255)
aTGCCCAGCTGAAAGACAGCTCTGGTCGTACTGCCTGGATCCCGTTGAAACAACTTAGCACGGAGCCaa > 1:730661/1‑69 (MQ=255)
gCCCAGGTGAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAg < 1:1901265/68‑1 (MQ=255)
gCCCAGGTGAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAg < 1:1950873/68‑1 (MQ=255)
gCCCAGGTGAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAg < 1:256757/68‑1 (MQ=255)
gCCCAGGTGAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAg < 1:1557276/68‑1 (MQ=255)
gCCCAGGTGAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAg < 1:779281/68‑1 (MQ=255)
gCCCAGGTGAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAg < 1:3221598/68‑1 (MQ=255)
gCCCAGGTGAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAg < 1:2914868/68‑1 (MQ=255)
cccAGGTGAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAg < 1:2536780/67‑1 (MQ=255)
cccAGGTGAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAg < 1:2313721/67‑1 (MQ=255)
cccAGGTGAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAg < 1:1161803/67‑1 (MQ=255)
cccAGGTGAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAg < 1:2277294/67‑1 (MQ=255)
gAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTc > 1:1854520/1‑69 (MQ=255)
gAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTc > 1:552795/1‑69 (MQ=255)
gAAAGACAGCTCTGGCCGTACCG‑CTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTcc > 1:994272/1‑69 (MQ=255)
aaaGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAg < 1:2008367/59‑1 (MQ=255)
gACAGCTCTGGCCGTACCGCCTGGATCCCTTTGAAACAACTTAGCACTGAGCCAAg < 1:721240/56‑1 (MQ=255)
gACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCgt > 1:2093513/1‑69 (MQ=255)
gACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCgt > 1:176999/1‑69 (MQ=255)
gACAGCTCTGGCCGTACCGCCTGGATCCCGGTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCgt > 1:474715/1‑69 (MQ=255)
aCAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCgtg > 1:2047982/1‑69 (MQ=255)
aCAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCgt > 1:921722/1‑68 (MQ=255)
tctGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCgtgt > 1:401198/1‑65 (MQ=255)
tctGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCgtgt > 1:1751437/1‑65 (MQ=255)
gTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTg > 1:837957/1‑68 (MQ=255)
aCCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGaa < 1:2466156/69‑1 (MQ=255)
aCCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGaa < 1:1358895/69‑1 (MQ=255)
aCCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGaa < 1:422412/69‑1 (MQ=255)
cccGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCaa > 1:387603/1‑69 (MQ=255)
cccGTTGAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCaa < 1:2908005/69‑1 (MQ=255)
cccGTTGAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCaa < 1:2206296/69‑1 (MQ=255)
cccGTTGAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCaa < 1:610702/69‑1 (MQ=255)
cccGTTGAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCaa < 1:177103/69‑1 (MQ=255)
cccGTTGAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCaa < 1:2856554/69‑1 (MQ=255)
cccGTTGAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCaa < 1:1290993/69‑1 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCaaaa < 1:578531/68‑1 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCaaaa < 1:1156252/68‑1 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCaaa > 1:1545274/1‑67 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAAc > 1:51066/1‑69 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAAc > 1:3369797/1‑69 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAAc > 1:889198/1‑69 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAAc > 1:3346484/1‑69 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAAc > 1:2760166/1‑69 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAAc > 1:1838190/1‑69 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:3062858/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:992142/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:1166628/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:2410528/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:1963080/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:649651/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:358589/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:3271823/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:546675/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:1608085/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:3314006/45‑1 (MQ=255)
gAAACAACTTAGCACGGAACCAAGCCTGCGTTCCCGTGTGCCAGa < 1:3139735/45‑1 (MQ=255)
gAAACAACTTAGCACGCAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:1727733/45‑1 (MQ=255)
aCTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATaaa < 1:445900/66‑1 (MQ=255)
aCTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt < 1:3286648/68‑1 (MQ=255)
aCTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt < 1:1993609/68‑1 (MQ=255)
aCTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt < 1:472195/68‑1 (MQ=255)
aCTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt < 1:209767/68‑1 (MQ=255)
aCTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt < 1:2118096/68‑1 (MQ=255)
|
ATGCCCAGGTGAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACT > minE/2052119‑2052245
|
| 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
