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 |
835,396 |
T→C |
21.5% |
Y38Y (TAT→TAC) |
narH → |
nitrate reductase 1, beta (Fe‑S) subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 835,396 | 0 | T | C | 21.5%
| 154.4
/ 38.7
| 79 | Y38Y (TAT→TAC) | narH | nitrate reductase 1, beta (Fe‑S) subunit |
| Reads supporting (aligned to +/- strand): ref base T (32/30); new base C (9/8); total (41/38) |
| 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 |
AGTGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCTTCCCGACTGACTGGGAAAACCAGGAAAAAT > minE/835326‑835466
|
aGTGCATCGGCTG‑CACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATg > 1:2513863/1‑71 (MQ=255)
gTGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAatat > 1:1832505/1‑70 (MQ=255)
tGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGc < 1:2472128/71‑1 (MQ=255)
tGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGc < 1:2742999/71‑1 (MQ=255)
cATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGt > 1:3270565/1‑71 (MQ=255)
cATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGt > 1:2047527/1‑71 (MQ=255)
aTCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTg < 1:69819/71‑1 (MQ=255)
ggCTGCCATACCTGTTCGGTGACCTGTAAAAACGTCTGGACCGGGCGCGAAGGCATGGAGTACGCATGGtt > 1:430549/1‑71 (MQ=255)
ggCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGt < 1:2436538/70‑1 (MQ=255)
gCTGCCATACCTGTTCGGTGACCTGTAAAAACGTCTGGACCGGGCGCGAAGGCATGGAGTACGCATGGttt < 1:109/71‑2 (MQ=255)
gCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGtt > 1:2297446/1‑70 (MQ=255)
gCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTc < 1:2074764/71‑1 (MQ=255)
cTGCCATACCTGTTCGGTGACCTGTAAAAACGTCTGGACCGGGCGCGAAGGCATGGAGTACGCATGGttt < 1:3108489/70‑2 (MQ=255)
tGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTcaa > 1:2398714/1‑71 (MQ=255)
tGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTcaa > 1:2051205/1‑71 (MQ=255)
tGCCACACCTGCTCGATCACCTGCAAGAACGTCTGGACCAGCCGCGAAGGCATGGAGTACGCCTGGTTcaa > 1:709105/1‑71 (MQ=255)
ccATACCTGTTCGGTGACCTGTAAAAACGTCTGGACCGGGCGCGAAGGCATGGAGTACGCATGGTTtaac > 1:2892066/1‑70 (MQ=255)
ccATACCTGTTCGGTGACCTGTAAAAACGTCTGGACCGGGCGCGAAGGCATGGAGTACGCATGGTTtaac > 1:1854520/1‑70 (MQ=255)
ccACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTcaa < 1:3337043/69‑1 (MQ=255)
tacCTGTTCGGTGACCTGTAAAAACGTCTGGACCGGGCGCGAAGGCATGGAGTACGCATGGTTTAACAACg < 1:2538245/70‑1 (MQ=255)
cacCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATg > 1:3634736/1‑56 (MQ=255)
cacCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACg < 1:2439287/71‑1 (MQ=255)
cacCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACg < 1:2316976/71‑1 (MQ=255)
acCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGt > 1:2166895/1‑71 (MQ=255)
cTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTcaaca > 1:1893268/1‑65 (MQ=255)
cTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTgg < 1:1327911/71‑1 (MQ=255)
cTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTg > 1:3401816/1‑70 (MQ=255)
tGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATg > 1:1440941/1‑52 (MQ=255)
ttgaGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGaa < 1:2134511/67‑1 (MQ=255)
ttCGGTGACCTGTAAAAACGTCTGGACCGGGCGCGAAGGCATGGAGTACGCATGGTTTAACAACGTCGaaa > 1:2118523/1‑71 (MQ=255)
ttCGGTGACCTGTAAAAACGTCTGGACCGGGCGCGAAGGCATGGAGTACGCATGGTTTAACAACGTCGaa < 1:243508/70‑1 (MQ=255)
ttCGGTGACCTGTAAAAACGTCTGGACCGGGCGCGAAGGCATGGAGTACGCATGGTTTAACAACGTCGa < 1:2919966/69‑1 (MQ=255)
ttCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTca < 1:3307356/59‑1 (MQ=255)
ttCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGa < 1:3215110/69‑1 (MQ=255)
tCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTcaac > 1:699739/1‑60 (MQ=255)
tCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTcaac > 1:1884875/1‑60 (MQ=255)
cAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAAc < 1:3762977/70‑1 (MQ=255)
aGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCa < 1:1729499/71‑1 (MQ=255)
gTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAAcc > 1:2873644/1‑69 (MQ=255)
gTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCaa < 1:3256987/71‑1 (MQ=255)
ttACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTca < 1:1815241/54‑1 (MQ=255)
ttACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAAcc < 1:2143466/68‑1 (MQ=255)
ttACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAg < 1:942218/71‑1 (MQ=255)
tgaCCTGTAAAAACGTCTGGACCGGGCGCGAAGGCATGGAGTACGCATGGTTTAACAACg < 1:3412602/58‑1 (MQ=255)
aCCTGTAAAAACGTCTGGACCGGGCGCGAAGGCATGGAGTACGCATGGTTTAACAACGtc > 1:2752404/1‑59 (MQ=255)
aCCTGTAAAAACGTCTGGACCGGGCGCGAAGGCATGGAGTACGCATGGTTTAACAACGTCGaaaccaaacc > 1:690504/1‑71 (MQ=255)
aCCTGTAAAAACGTCTGGACCGGGCGAGAAGGCATGGAGTACGCATGGTTTAACAACGtc > 1:3463912/1‑59 (MQ=255)
aCCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCaa < 1:1861070/68‑1 (MQ=255)
aCCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGcc > 1:3361058/1‑71 (MQ=255)
ccTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGcc < 1:2274587/70‑1 (MQ=255)
cTGTAAAAACGTCTGGACCGGGCGCGAAGGCATGGAGTACGCATGGTTTAACAACGtc < 1:2574569/58‑2 (MQ=255)
ttAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCggg > 1:3332404/2‑70 (MQ=255)
tAAAAACGTCTGGACCGGGCGCGAAGGCATGGAGTACGCATGGTTTaacaac < 1:1343900/52‑1 (MQ=255)
tAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTcaacaa > 1:2718493/1‑51 (MQ=255)
tAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGcc < 1:188282/71‑1 (MQ=255)
tAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGcc < 1:3938006/71‑1 (MQ=255)
tAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGc > 1:1180552/1‑70 (MQ=255)
aaaaCGTCTGGACCGGGCGCGAAGGCATGGAGTACGCATGGTTTAACAACGTCGAAACCAAACCGGGcatt > 1:1561972/1‑68 (MQ=255)
aaaaCGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCa < 1:3446346/70‑1 (MQ=255)
aCGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTcaac > 1:1052481/1‑44 (MQ=255)
aCGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTcaac > 1:1236055/1‑44 (MQ=255)
aCGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGc > 1:1035147/1‑71 (MQ=255)
aCGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGc > 1:2327977/1‑71 (MQ=255)
aCGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAAGGc < 1:1573352/71‑1 (MQ=255)
cGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCt < 1:1203280/71‑1 (MQ=255)
cTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCa > 1:2080787/1‑63 (MQ=255)
gACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCTTccc < 1:2819519/69‑1 (MQ=255)
gCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCTTCCCgactgac > 1:3545396/1‑71 (MQ=255)
ccGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCa < 1:2673428/44‑1 (MQ=255)
ccGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCTTCCCgactgact > 1:3544092/1‑71 (MQ=255)
ccGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCTTCCCgactgact < 1:1795505/71‑1 (MQ=255)
cGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCTTCCCGactgactg > 1:3840697/1‑71 (MQ=255)
cGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCTTCCCGactgactg > 1:546169/1‑71 (MQ=255)
tGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCtt > 1:3829742/1‑57 (MQ=255)
gAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCggg > 1:295014/1‑47 (MQ=255)
gAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCggg > 1:299584/1‑47 (MQ=255)
gAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCTTccc > 1:2759982/1‑59 (MQ=255)
gCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCTTCCCGACTGACTGGGAAAAc < 1:1808116/71‑1 (MQ=255)
ggAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGc > 1:1609513/1‑40 (MQ=255)
gAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCTTCCCGACTGACTGGGa < 1:979206/62‑1 (MQ=255)
atatGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCTTCCCGACTGACTGGGAAAACCAGGaa < 1:3411636/70‑1 (MQ=255)
tGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCTTCCCGACTGACTGGGAAAACCAGGaaaaa > 1:729834/1‑70 (MQ=255)
tGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCTTCCCGACTGACTGGGAAAACCAGGAAAAAt < 1:2451514/71‑1 (MQ=255)
|
AGTGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCCGTGAAGGCGTGGAATATGCGTGGTTCAACAACGTGGAAACCAAGCCGGGCCAGGGCTTCCCGACTGACTGGGAAAACCAGGAAAAAT > minE/835326‑835466
|
| 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
