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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
835,960 |
A→T |
24.5% |
G226G (GGA→GGT) |
narH → |
nitrate reductase 1, beta (Fe‑S) subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 835,960 | 0 | A | T | 24.5%
| 119.9
/ 37.4
| 65 | G226G (GGA→GGT) | narH | nitrate reductase 1, beta (Fe‑S) subunit |
| Reads supporting (aligned to +/- strand): ref base A (20/29); new base T (7/9); total (27/38) |
| 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 |
GCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCC > minE/835891‑836028
|
gCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGAt < 1:2291124/71‑1 (MQ=255)
gCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGAt < 1:2115226/71‑1 (MQ=255)
gCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGAt < 1:2449836/71‑1 (MQ=255)
gCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGAt < 1:364089/71‑1 (MQ=255)
gaagaaGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGccc > 1:3641783/1‑71 (MQ=255)
gaagaaGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGccc > 1:1734274/1‑71 (MQ=255)
aagaagATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCg < 1:986271/71‑1 (MQ=255)
aagaagATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCg < 1:3582159/71‑1 (MQ=255)
agaagaTGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCg > 1:3266908/1‑70 (MQ=255)
agaTGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGa > 1:933712/1‑61 (MQ=255)
gacggCATTGTGCTGATTGATCAGGATAAATGCCGTGGCTGGCGTTTGTGCATAAGCGGTTGTCCGTACa > 1:2196522/4‑70 (MQ=255)
gaTGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACaa < 1:781931/71‑1 (MQ=255)
cggCATTGTGCTGATTGATCAGGATAAATGCCGTGGCTGGCGTTTGTGCATAAGCGGTTGTCCGTACaaa > 1:155852/2‑70 (MQ=255)
ggCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACaaaa > 1:1867789/1‑70 (MQ=255)
gCATTGTGCTGATTGATCAGGATAAATGCCGTGGCTGGCGTTTGTGCATAAGCGGTTGTCCGTACaaaaaa < 1:71648/71‑1 (MQ=255)
gCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACaaaaaa < 1:635731/71‑1 (MQ=255)
gCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACaaaaaa < 1:3279261/71‑1 (MQ=255)
cATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACaaaaaaa < 1:177164/71‑1 (MQ=255)
tCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATc > 1:3691146/1‑71 (MQ=255)
gTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCt < 1:2782806/70‑1 (MQ=255)
tCCTGATCGACCAGGATAAATGCCGTGGCTGGCTTATGTGCATCACTGGATGCCCGTACAAAAAAATCTAc < 1:925842/71‑1 (MQ=255)
cTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACt < 1:219070/70‑1 (MQ=255)
cTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACt < 1:100622/70‑1 (MQ=255)
tGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACtt > 1:2159777/1‑70 (MQ=255)
gATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGccc > 1:256887/1‑51 (MQ=255)
gACCAGGATAAATGCCGTGGGTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTg < 1:2925096/71‑1 (MQ=255)
tcAGGATAAATGCCGTGGCTGGCGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGa < 1:3108239/70‑1 (MQ=255)
gATAAATGCCGTGGCTGGCGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAaaag > 1:3892619/1‑71 (MQ=255)
gATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAagag > 1:3515872/1‑71 (MQ=255)
tAAATGCCGTGGCTGGCGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCg < 1:271886/71‑1 (MQ=255)
tAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCg < 1:3585669/71‑1 (MQ=255)
aTGCCGTGGCTGGCGTATGTGCATCACTGGATGccc > 1:2835075/1‑36 (MQ=255)
aTGCCGTGGCTGGCGTATGTGCATCACTGGATGccc > 1:1655903/1‑36 (MQ=255)
tGCCGTGGCTGGCGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCaa < 1:838168/71‑1 (MQ=255)
ccGTGGCTGGCGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGt < 1:604585/71‑1 (MQ=255)
ccGTGGCTGGCGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGt < 1:2965818/71‑1 (MQ=255)
gTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCt < 1:239832/71‑1 (MQ=255)
tggctggcGTATGTGCATCTCTGGATGCCCGTACAAAAAAATCTACTTCAACTGGaa < 1:3299187/57‑1 (MQ=255)
tggctggcGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTg < 1:2128510/71‑1 (MQ=255)
ggctggcGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTcag > 1:1195984/1‑68 (MQ=255)
ggctggcGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCt > 1:2222021/1‑69 (MQ=255)
gctggcGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTgag < 1:203394/71‑1 (MQ=255)
tggcGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAgaaa > 1:1152407/1‑68 (MQ=255)
gcGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGaaaaat > 1:1719179/1‑69 (MQ=255)
gcGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGaaaa < 1:3241472/69‑1 (MQ=255)
gcGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGaaaa < 1:3246154/69‑1 (MQ=255)
gcGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGaaaa < 1:1843920/69‑1 (MQ=255)
gcGTATGTTCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAg > 1:2915481/1‑70 (MQ=255)
gcGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGt > 1:3747510/1‑71 (MQ=255)
cGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTgag < 1:934189/66‑1 (MQ=255)
tATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCa < 1:1503231/71‑1 (MQ=255)
tATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCa < 1:1710470/71‑1 (MQ=255)
aTGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCAt > 1:1890133/1‑71 (MQ=255)
aTGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCAt > 1:309516/1‑71 (MQ=255)
tgtgCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCAtc < 1:1561817/71‑1 (MQ=255)
tgtgCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCAtc > 1:778851/1‑71 (MQ=255)
gCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTgg > 1:934545/1‑41 (MQ=255)
cATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGt > 1:207690/1‑53 (MQ=255)
cATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCAtcttc < 1:1723363/70‑1 (MQ=255)
tCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGc > 1:241643/1‑71 (MQ=255)
aCTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTa < 1:501911/71‑1 (MQ=255)
aCTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTa < 1:2942732/71‑1 (MQ=255)
cTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTAt > 1:3086932/1‑71 (MQ=255)
ggATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATcc > 1:2096601/1‑71 (MQ=255)
gATGCCCGTACAAAAAAATCTACTTCAATTGGAAGAGCGGTAAGTc < 1:2849429/46‑1 (MQ=255)
gATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTc < 1:583075/46‑1 (MQ=255)
aTGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGaa < 1:2546401/51‑1 (MQ=255)
|
GCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCC > minE/835891‑836028
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
