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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,439,432 |
G→A |
43.3% |
F290F (TTC→TTT) |
ompC ← |
outer membrane porin protein C |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,439,432 | 0 | G | A | 43.3%
| 41.7
/ 91.2
| 120 | F290F (TTC→TTT) | ompC | outer membrane porin protein C |
| Reads supporting (aligned to +/- strand): ref base G (44/24); new base A (29/23); total (73/47) |
| Fisher's exact test for biased strand distribution p-value = 3.50e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.87e-01 |
Only 100 of 126 total aligned reads displayed.
TCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTAC > minE/1439367‑1439500
|
tcgtcgtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCg < 1:1054112/66‑1 (MQ=255)
tcgtcgtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCg < 1:2663533/66‑1 (MQ=255)
tcgtcgtAGCCACGACCCAGGTTTTTACCTTTAGACCGCAGGTAAGCCAGGGACGGACGCAGACCg < 1:199401/66‑1 (MQ=255)
cgtcgtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCg < 1:2660400/65‑1 (MQ=255)
cgtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCg < 1:3218568/68‑1 (MQ=255)
cgtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCg < 1:894290/68‑1 (MQ=255)
cgtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGa < 1:848595/69‑1 (MQ=255)
gtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGaa > 1:3414576/1‑69 (MQ=255)
gtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGaa > 1:2087243/1‑69 (MQ=255)
gtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGaa > 1:1378601/1‑69 (MQ=255)
gtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGaa > 1:413713/1‑69 (MQ=255)
gtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGa < 1:2875616/68‑1 (MQ=255)
cACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCATACCGAAGTCGAACTGGt < 1:3004904/69‑1 (MQ=255)
cACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGt < 1:2628024/69‑1 (MQ=255)
cACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGt < 1:2546952/69‑1 (MQ=255)
cACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGt < 1:2408058/69‑1 (MQ=255)
cACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGt < 1:2297581/69‑1 (MQ=255)
cACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGt < 1:3163742/69‑1 (MQ=255)
cACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGt < 1:2241734/69‑1 (MQ=255)
cACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGt < 1:1578144/69‑1 (MQ=255)
cACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGt < 1:1174930/69‑1 (MQ=255)
ggTTTTTACCTTTAGACTGCAGGTATGCTACAGACGGACGCAGACCAAAGTCGAACTGGTACTGAGCaa < 1:894864/69‑1 (MQ=25)
ggTTTTTACCTTTAGACTGCAGGTATGCTACAGACGGACGCAGACCAAAGTCGAACTGGTACTGAGCaa < 1:582245/69‑1 (MQ=25)
ggTTTTTACCTTTAGACTGCAGGTATGCTACAGACGGACGCAGACCAAAGTCGAACTGGTACTGAGCaa < 1:710819/69‑1 (MQ=25)
ggTTTTTACCTTTAGACTGCAGGTATGCTACAGACGGACGCAGACCAAAGTCGAACTGGTACTGAGCaa < 1:2300599/69‑1 (MQ=25)
ggTTTTTACCTTTAGACTGCAGGTATGCTACAGACGGACGCAGACCAAAGTCGAACTGGTACTGAGCaa < 1:873825/69‑1 (MQ=25)
ggTTTTTACCTTTAGACTGCAGGTATGCTACAGACGGACGCAGACCAAAGTCGAACTGGTACTGAGCaa < 1:514124/69‑1 (MQ=25)
tttttACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACa > 1:1633734/1‑69 (MQ=255)
tAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAg > 1:2120488/1‑68 (MQ=255)
tAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGt > 1:1377653/1‑69 (MQ=255)
tAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGt > 1:2484772/1‑69 (MQ=255)
gACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGt < 1:3401087/67‑1 (MQ=255)
gACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGt < 1:523934/67‑1 (MQ=255)
gCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAg > 1:498684/1‑54 (MQ=255)
cAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGt < 1:1845067/41‑1 (MQ=255)
cAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCg > 1:2726274/1‑68 (MQ=255)
cAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCg > 1:1224674/1‑68 (MQ=255)
gacggacgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGccaa > 1:2641713/1‑66 (MQ=255)
gacggacgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCaa > 1:1443428/1‑69 (MQ=255)
gacggacgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCaa > 1:1912375/1‑69 (MQ=255)
gacggacgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCaa > 1:1406122/1‑69 (MQ=255)
gacggacgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCaa > 1:642261/1‑69 (MQ=255)
acggacgCAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtgtg < 1:2685633/54‑1 (MQ=255)
acggacgCAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtgtg < 1:1196034/54‑1 (MQ=255)
acggacgCAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtgtg < 1:478246/54‑1 (MQ=255)
acggacgCAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtgtg < 1:95905/54‑1 (MQ=255)
acggacgCAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtgtg < 1:2412474/54‑1 (MQ=255)
acggacgCAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtgtg < 1:2349167/54‑1 (MQ=255)
acggacgCAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtgtg < 1:1495874/54‑1 (MQ=255)
acggacgCAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtgtg < 1:1844696/54‑1 (MQ=255)
acggacgCAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtgtg < 1:1919383/54‑1 (MQ=255)
acggacgCAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtgtg < 1:2083138/54‑1 (MQ=255)
acggacgCAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtgtg < 1:786010/54‑1 (MQ=255)
cggacgCAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtgtg < 1:3418943/53‑1 (MQ=255)
ggacgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTGGCCCAAccc < 1:1504863/69‑1 (MQ=255)
cAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAggg > 1:3310436/1‑68 (MQ=255)
cAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:2153782/1‑69 (MQ=255)
cAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:2362683/1‑69 (MQ=255)
cAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:411820/1‑69 (MQ=255)
cAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:3144411/1‑69 (MQ=255)
cAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:312890/1‑69 (MQ=255)
cAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:1621315/1‑69 (MQ=255)
cAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:1686920/1‑69 (MQ=255)
cAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:1360523/1‑69 (MQ=255)
cAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:2874618/1‑69 (MQ=255)
cAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:1264848/1‑69 (MQ=255)
cAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:1229867/1‑69 (MQ=255)
cAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCAAGGGa > 1:1707989/1‑69 (MQ=255)
cAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGATCGCCCAACCCAGGGa > 1:3384818/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCg > 1:157530/1‑56 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAggg > 1:147344/1‑68 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:442161/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:1029541/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:914261/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:714253/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:605240/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:1156641/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:1446659/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:1259884/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:2191029/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:1163091/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:2332645/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:2358790/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:2427913/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:2458828/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:2521096/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:2790529/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:2873/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:3012118/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:3013994/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:1054834/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:1013624/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:3326732/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGACCAACCCAGGGa > 1:3317166/1‑69 (MQ=255)
cAGACCAAAGTCGAACTGATACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGa > 1:966579/1‑69 (MQ=255)
ccGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTc > 1:808639/1‑51 (MQ=255)
ccGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCt > 1:224065/1‑69 (MQ=255)
ccGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCt > 1:424014/1‑69 (MQ=255)
ccGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCt > 1:3093674/1‑69 (MQ=255)
ccGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTCTGCTTTGTTCGCCCAACCCATGGAACCt > 1:535268/1‑69 (MQ=255)
|
TCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTAC > minE/1439367‑1439500
|
| 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
