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 |
2,919,273 |
A→G |
14.3% |
D141D (GAT→GAC) |
argI ← |
ornithine carbamoyltransferase 1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,919,273 | 0 | A | G | 14.3%
| 210.3
/ 22.8
| 84 | D141D (GAT→GAC) | argI | ornithine carbamoyltransferase 1 |
| Reads supporting (aligned to +/- strand): ref base A (35/37); new base G (4/8); total (39/45) |
| Fisher's exact test for biased strand distribution p-value = 3.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATACCGGCACGCTAGCGTATTC > minE/2919205‑2919341
|
tCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATc < 1:984147/71‑1 (MQ=255)
cTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGagaaga < 1:1332913/65‑1 (MQ=255)
gCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCcag > 1:2729199/1‑71 (MQ=255)
gCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCcag > 1:3375487/1‑71 (MQ=255)
gCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCcag > 1:1443836/1‑71 (MQ=255)
cATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCcag > 1:215778/1‑70 (MQ=255)
cATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCcag < 1:2524156/70‑1 (MQ=255)
tAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCcagcag > 1:1566546/1‑71 (MQ=255)
tAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCcagcag > 1:3820175/1‑71 (MQ=255)
aGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCagcagc > 1:345191/1‑71 (MQ=255)
gACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCt < 1:488704/71‑1 (MQ=255)
gACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCt < 1:1845784/71‑1 (MQ=255)
gACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCt < 1:678766/71‑1 (MQ=255)
gACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCt > 1:2324041/1‑71 (MQ=255)
aCCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCcagca < 1:1536491/67‑1 (MQ=255)
ccAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGc < 1:417966/71‑1 (MQ=255)
cAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCg > 1:898756/1‑71 (MQ=255)
tcctttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGa < 1:1672665/68‑1 (MQ=255)
tCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGa < 1:1495109/71‑1 (MQ=255)
cATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGAt > 1:3709877/1‑71 (MQ=255)
atctCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTGGGTCGGGTg < 1:2544862/68‑1 (MQ=255)
aTTTCGTTGAACGCTTTGCCTGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATg < 1:1517941/71‑1 (MQ=255)
tttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGTGAAGATCCGCCAGCAGCTGCGTGGGATgg < 1:2800/71‑1 (MQ=255)
tttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATgg < 1:291035/71‑1 (MQ=255)
tttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATgg < 1:1516533/71‑1 (MQ=255)
tttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGAATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATgg < 1:2940543/71‑1 (MQ=255)
cGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAAc > 1:3500525/1‑71 (MQ=255)
cGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAAc > 1:464517/1‑71 (MQ=255)
gTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTGGGTCGGGTGGaa < 1:3462692/69‑1 (MQ=255)
ttGAACGCTTTGCCGGGCAAATGGTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATgg > 1:16463/1‑66 (MQ=255)
ttGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTc < 1:1014133/71‑1 (MQ=255)
ttGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTc < 1:1671315/71‑1 (MQ=255)
tGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGTATGGAACTCa > 1:242989/1‑71 (MQ=255)
tGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTc < 1:856089/70‑1 (MQ=255)
tGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCa > 1:632586/1‑71 (MQ=255)
gAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATTGAACTCa < 1:2928175/70‑1 (MQ=255)
aaCGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATgg < 1:3392923/63‑1 (MQ=255)
aaCGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCAt < 1:935183/70‑1 (MQ=255)
aaCGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTGGGTCGGGTGGAACTcgt < 1:1989517/70‑3 (MQ=255)
aaCGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTGGGTCGGGTGGAACTcgt < 1:3478967/70‑3 (MQ=255)
aCGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTgg > 1:705940/1‑52 (MQ=255)
cGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGAt > 1:1315962/1‑38 (MQ=255)
gCTTTGCCGGGCAATTGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGt < 1:2727425/71‑1 (MQ=255)
gCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGt < 1:2405156/71‑1 (MQ=255)
gCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGt < 1:56103/71‑1 (MQ=255)
tttGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGt > 1:25113/1‑69 (MQ=255)
cttGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTGGGTCGGGTCGAACTCGTTGGt > 1:260038/2‑69 (MQ=255)
ttGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAg > 1:1152492/1‑71 (MQ=255)
tGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAgg > 1:983456/1‑71 (MQ=255)
gCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGc > 1:356765/1‑71 (MQ=255)
gCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGc > 1:1081914/1‑71 (MQ=255)
cGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGcc < 1:1194635/70‑1 (MQ=255)
gggCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCAt < 1:2248350/71‑1 (MQ=255)
ggCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCAtt < 1:3875150/71‑1 (MQ=255)
ggCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCAtt < 1:3517193/71‑1 (MQ=255)
gCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTc > 1:2506764/1‑71 (MQ=255)
cAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTc > 1:3647491/1‑70 (MQ=255)
cAAATGCTCCTGCATGGTGAGAAGATCCGCAAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTcc < 1:2330912/71‑1 (MQ=255)
aaaTGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTcc > 1:1394035/1‑70 (MQ=255)
aaaTGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCa > 1:3419366/1‑71 (MQ=255)
aaTGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGa > 1:2164908/1‑48 (MQ=255)
aaTGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGa > 1:301951/1‑48 (MQ=255)
aaTGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCAtt > 1:2429364/1‑55 (MQ=255)
aaTGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCAt < 1:1589273/71‑1 (MQ=255)
aaTGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCAt < 1:2438395/71‑1 (MQ=255)
gtGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCt < 1:2163477/34‑1 (MQ=16)
gtGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCt < 1:2551466/34‑1 (MQ=16)
aTGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATa < 1:738670/71‑1 (MQ=255)
tGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTGGGTCGGGTGGaa > 1:278211/1‑47 (MQ=16)
gCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATg > 1:3463126/1‑43 (MQ=255)
gCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATAcc > 1:2131374/1‑71 (MQ=255)
gCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATAcc > 1:1154139/1‑71 (MQ=255)
tCCTGCATGGTGAGAAGATCCGCCAGCAGGTGCGTGGGATGGAACTCATTGGTCAgg > 1:1842506/1‑57 (MQ=255)
tCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAg < 1:3008816/56‑1 (MQ=255)
tCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAg < 1:4085/56‑1 (MQ=255)
ccTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATTGAACTCATTGGTCAg < 1:3099690/55‑1 (MQ=255)
cTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATACCGGCa > 1:2599004/1‑71 (MQ=255)
cTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGGCAGGCCATTCCATACCgg < 1:2504979/69‑1 (MQ=255)
cTGCATGGTCATCAGGTCCGCCAGCAGCTGGGTCGGGTGGAACTCGTTGGTCAGCCCGTTCCACACCGGc < 1:2359793/70‑1 (MQ=255)
gCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATACCGGCACg > 1:254901/1‑71 (MQ=255)
gCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATACCGGCACg > 1:1567680/1‑71 (MQ=255)
cATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATACCGGCACGc < 1:1445464/71‑1 (MQ=255)
cATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATACCGGCACGc < 1:985564/71‑1 (MQ=255)
aTGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATACCGGCACGc > 1:1852288/1‑70 (MQ=255)
tGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATACCGGCACGCTAGCg < 1:236448/71‑1 (MQ=255)
agaagaTCCGCCAGCAGCTGCGTGGGATGGAACTCAt < 1:2142807/37‑1 (MQ=255)
agaagaTCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATACCGGCACGCTAGCGTa < 1:3870150/71‑1 (MQ=255)
gaagaTCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATACCGGCACGCTAGCGTAt < 1:1442393/71‑1 (MQ=255)
gaagaTCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATACCGGCACGCTAGCGTAt > 1:2488977/1‑71 (MQ=255)
agaTCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATACCGGCACGCTAGCGTATTc > 1:2220404/1‑71 (MQ=255)
aTCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTc < 1:627250/37‑1 (MQ=255)
|
TCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGGAACTCATTGGTCAGGCCATTCCATACCGGCACGCTAGCGTATTC > minE/2919205‑2919341
|
| 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
