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 |
836,725 |
T→C |
29.2% |
G481G (GGT→GGC) |
narH → |
nitrate reductase 1, beta (Fe‑S) subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 836,725 | 0 | T | C | 29.2%
| 88.7
/ 44.3
| 65 | G481G (GGT→GGC) | narH | nitrate reductase 1, beta (Fe‑S) subunit |
| Reads supporting (aligned to +/- strand): ref base T (21/25); new base C (12/7); total (33/32) |
| Fisher's exact test for biased strand distribution p-value = 2.77e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.77e-01 |
TGCCGAGTAGTCATCGTGAACTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATCGATGT > minE/836655‑836793
|
tgCCGAGTAGTCATCGTGAACTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGt < 1:5664183/71‑1 (MQ=255)
gAGTAGTCATCGTGAACTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGa > 1:4670466/1‑69 (MQ=255)
tagtCATCGTGAACTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCt < 1:1544505/71‑1 (MQ=255)
agtCATCGTGAACTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTg > 1:5407885/1‑71 (MQ=255)
gtCATCGTGAACTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGc < 1:3069395/71‑1 (MQ=255)
aTCGTGAACTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCAc > 1:4901450/1‑71 (MQ=255)
aTCGTGAACTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCAc > 1:2605887/1‑71 (MQ=255)
gTGAACTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACgg < 1:2413018/70‑1 (MQ=255)
gTGAACTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGt < 1:5057815/71‑1 (MQ=255)
aaCTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTc < 1:3285535/70‑1 (MQ=255)
aaCTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCa < 1:4003730/71‑1 (MQ=255)
aaCTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCa < 1:2629317/71‑1 (MQ=255)
aaCTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCa < 1:2030306/71‑1 (MQ=255)
cTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGtt > 1:5211824/1‑67 (MQ=255)
gCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGAt < 1:4478425/69‑1 (MQ=255)
gCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATAc < 1:4704751/71‑1 (MQ=255)
gCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATAc > 1:4960792/1‑71 (MQ=255)
ggAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCa < 1:1466983/54‑1 (MQ=255)
gAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAAt > 1:1311103/1‑70 (MQ=255)
ttCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCt > 1:5374951/1‑71 (MQ=255)
ttCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCt > 1:1639148/1‑71 (MQ=255)
cccGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCa > 1:2921608/1‑65 (MQ=255)
ccGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAAtat < 1:36201/68‑3 (MQ=255)
gagaAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGa > 1:5080526/1‑50 (MQ=255)
gagaAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCaa < 1:4171227/71‑1 (MQ=255)
gagaAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCaa < 1:1179091/71‑1 (MQ=255)
agaAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAAc < 1:2411600/71‑1 (MQ=255)
aaaaTGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGc > 1:3696734/1‑71 (MQ=255)
aTGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGa > 1:490811/1‑43 (MQ=255)
aTGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCcgt < 1:1872508/71‑1 (MQ=255)
tGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCcgtc < 1:5382576/71‑1 (MQ=255)
cggCTGCGGTTTTACCTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCaa < 1:455325/62‑1 (MQ=255)
cggCTGCGGTTTTACCTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCaa < 1:559492/62‑1 (MQ=255)
gCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCcgtcg > 1:2837936/1‑70 (MQ=255)
gCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCcgtcg < 1:166639/70‑1 (MQ=255)
cGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTAt < 1:5664473/69‑1 (MQ=255)
ttttACCTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCt < 1:135681/47‑1 (MQ=12)
ttttACCTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCaa < 1:503579/53‑1 (MQ=255)
ttttACCTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCaa < 1:1566295/53‑1 (MQ=255)
ttttACCTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCaa < 1:4524248/53‑1 (MQ=255)
cTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATg > 1:3789776/1‑71 (MQ=255)
cTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATg > 1:2882609/1‑71 (MQ=255)
tttACCTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCAACAGTAGCCGTATCGATGc > 1:1247521/1‑71 (MQ=255)
tttACCTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCAACAGTAGCCGTATCGATGc > 1:5645257/1‑71 (MQ=255)
ttACCTTTGGTGATGGCTGCCACGGTTCAGATACCaaa > 1:5224641/1‑38 (MQ=255)
ttACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCa < 1:3268082/42‑1 (MQ=255)
ttACCTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCaac > 1:2580879/1‑43 (MQ=12)
ttACCTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGt > 1:3234015/1‑48 (MQ=12)
ttACCTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCAACAGTAGCCGTATCGa > 1:4812277/1‑67 (MQ=255)
ttACCTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCAACAGTAGCCGTATCGa > 1:5199273/1‑67 (MQ=255)
ttACCTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCAACAGTAGCCGTATCGATGc > 1:1749722/1‑70 (MQ=255)
ttACCTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCAACAGTAGCCGTATCGATGc > 1:1399900/1‑70 (MQ=255)
aCCTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCAACAGTAGCCGTATCGATGCCAt > 1:3829882/1‑71 (MQ=255)
ccTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATc > 1:629293/1‑71 (MQ=255)
ccTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCAACAGTAGCCGTATCGATGCCAt > 1:2334146/1‑70 (MQ=255)
ccTTTGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCAACAGTAGCCGTATCGATGCCAt > 1:890104/1‑70 (MQ=255)
cTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATCg < 1:4851786/71‑1 (MQ=255)
cTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATCg < 1:3580117/71‑1 (MQ=255)
tttGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATCGa > 1:4820286/1‑71 (MQ=255)
ttGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTc < 1:4573182/44‑1 (MQ=255)
ttGGTGATGGCTGACACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATCGAt > 1:4055775/1‑71 (MQ=255)
ttGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCAACAGTAGCCGTATCGATGCCATcaa > 1:812827/1‑68 (MQ=255)
tGGCGACGGTTGCCACGGTTCGGACAGTAAATTCAACCTGTTCAACAGTAGCCGTATCGATGCCATcaac < 1:1709982/70‑4 (MQ=255)
gTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATCGAtgt > 1:4309356/1‑70 (MQ=255)
gTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATCGAtgt < 1:330699/70‑1 (MQ=255)
gTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATCGAtgt < 1:2375236/70‑1 (MQ=255)
|
TGCCGAGTAGTCATCGTGAACTGGCACGGGAAGCCTTCCCGGAGAAAAATGGCTGCGGCTTTACCTTTGGTGATGGCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATCGATGT > minE/836655‑836793
|
| 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
