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 |
836,047 |
G→A |
14.5% |
Q255Q (CAG→CAA) |
narH → |
nitrate reductase 1, beta (Fe‑S) subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 836,047 | 0 | G | A | 14.5%
| 137.1
/ 13.5
| 55 | Q255Q (CAG→CAA) | narH | nitrate reductase 1, beta (Fe‑S) subunit |
| Reads supporting (aligned to +/- strand): ref base G (18/29); new base A (2/6); total (20/35) |
| Fisher's exact test for biased strand distribution p-value = 6.96e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.73e-01 |
CTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGAC > minE/835981‑836116
|
cTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGcc < 1:3729428/69‑1 (MQ=255)
cTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGcc < 1:2234600/69‑1 (MQ=255)
cTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCg < 1:1050029/70‑1 (MQ=255)
cTTCAACTCCAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAACCGGGTCAGcc < 1:224040/69‑1 (MQ=255)
cAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCg > 1:1174327/1‑71 (MQ=255)
cAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCg > 1:39260/1‑71 (MQ=255)
cAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCg > 1:2590286/1‑71 (MQ=255)
aaCTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCgt < 1:514625/71‑1 (MQ=255)
aaCTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCgt < 1:1229407/71‑1 (MQ=255)
tGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTACCCACGAATTGAGTCCGGTCAACCGACCGtgtg > 1:2997512/1‑71 (MQ=255)
gAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCt < 1:534380/71‑1 (MQ=255)
gagCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAg < 1:431094/71‑1 (MQ=255)
agCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAg > 1:2151562/1‑70 (MQ=255)
agCGGCAAGTCAGAAAAATGCATCTTCTGTTACCCACGAATTGAGTCCGGTCAACCGACCGTGTGCTCAGa < 1:78065/71‑1 (MQ=255)
gCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGa < 1:2602887/70‑1 (MQ=255)
cGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCgtgt < 1:2625560/62‑1 (MQ=255)
caaGTCAGAAAAATGCATCTTCTGTTACCCACGAATTGAGTCCGGTCAACCGACCGTGTGCTc < 1:1988407/62‑1 (MQ=255)
aaGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCt < 1:730330/70‑1 (MQ=255)
aaGTCAGAAAAATGCATCTTCTGTTACCCACGAATTGAGTCCGGTCAACCGACCGTGTGCTCAGAAACCtg < 1:1467286/71‑1 (MQ=255)
aGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCtgt > 1:1183589/1‑71 (MQ=255)
aGTCAGAAAAATGCATCTTCTGTTACCCACGAATTGAGTCCGGTCAACCGACCGTGTGCTCAGAAACCtgc < 1:1451602/71‑2 (MQ=255)
aGTCAGAAAAATGCATCTTCTGTTACCCACGAATTGAGTCCGGTCAACCGACCGTGTGCTCAGAAACCtgc < 1:1001021/71‑2 (MQ=255)
aGTCAGAAAAATGCATCTTCTGTTACCCACGAATTGAGTCCGGTCAACCGACCGTGTGCTCAGAAACCtgc < 1:57487/71‑2 (MQ=255)
gTCTGAGAAGTTCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCtgtg < 1:3809722/71‑1 (MQ=255)
tCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCtgtg < 1:3616713/70‑1 (MQ=255)
cTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTgtc > 1:1855850/1‑71 (MQ=255)
cTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTgtc > 1:2418464/1‑71 (MQ=255)
tGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTgtcg > 1:713415/1‑71 (MQ=255)
agaAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTgtctgt < 1:3299085/71‑1 (MQ=255)
aaGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGAcc < 1:3748508/45‑1 (MQ=255)
cATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCt < 1:2894151/47‑1 (MQ=255)
cATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCt < 1:2889402/47‑1 (MQ=255)
aTCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATc < 1:2031284/69‑1 (MQ=255)
cttctGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGc < 1:2570468/43‑1 (MQ=255)
ttctGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTgtcggt > 1:386489/1‑60 (MQ=255)
ttctGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTa > 1:552364/1‑71 (MQ=255)
ctGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGtt < 1:3322880/68‑1 (MQ=255)
ctGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTa < 1:1342928/69‑1 (MQ=255)
tGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCt > 1:3160639/1‑71 (MQ=255)
cTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATc > 1:1987431/1‑68 (MQ=255)
cTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCt < 1:2158343/69‑1 (MQ=255)
cTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTg > 1:1706436/1‑71 (MQ=255)
gTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCtg < 1:949474/71‑1 (MQ=255)
ttGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCtgttg > 1:3530571/1‑71 (MQ=255)
ttGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCtgttg > 1:2328352/1‑71 (MQ=255)
tGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGc < 1:3339722/65‑1 (MQ=255)
tGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGc < 1:525683/65‑1 (MQ=255)
gAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCtgttgt < 1:3000923/70‑1 (MQ=255)
gggTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCtgt < 1:3573289/62‑1 (MQ=255)
cggTCAACCGACCGTGTGCTCAGAAACCTGCGTGGGTCGCATCCGGTATCTGGGCGTGCTGCTTTACGacg > 1:655405/2‑69 (MQ=255)
ggTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGc < 1:3796849/71‑1 (MQ=255)
ggTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGc > 1:1508657/1‑71 (MQ=255)
gTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGcc < 1:3322266/71‑1 (MQ=255)
aGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGa > 1:2824103/1‑70 (MQ=255)
aGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGAc > 1:3709775/1‑71 (MQ=255)
|
CTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGAC > minE/835981‑836116
|
| 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
