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 |
1,799,450 |
T→C |
27.6% |
Y92Y (TAT→TAC) |
proW → |
glycine betaine transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,799,450 | 0 | T | C | 27.6%
| 66.3
/ 25.5
| 65 | Y92Y (TAT→TAC) | proW | glycine betaine transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (13/34); new base C (13/5); total (26/39) |
| Fisher's exact test for biased strand distribution p-value = 1.66e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.54e-01 |
GAAGGGATCGACTGGGTCGTTACCCATTTCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTGGG > minE/1799382‑1799482
|
gAAGGGATCGACTGGGTCGTTACCCATTTCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATtat > 1:2008206/1‑69 (MQ=255)
gggATCGACTGGGTCGTTACCCATTTCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATtata < 1:1360746/67‑1 (MQ=255)
gggATCGACTGGGTCGTTACCCATTTCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATtata < 1:2570272/67‑1 (MQ=255)
gggATCGACTGGGTCGTTACCCATTTCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATtata < 1:2160746/67‑1 (MQ=255)
gggTCGTTACCCATTTCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGtt < 1:1753158/69‑1 (MQ=255)
gggTCGTTACCCATTTCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGtt < 1:2145836/69‑1 (MQ=255)
gggTCGTTACCCATTTCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGtt < 1:850141/69‑1 (MQ=255)
gggTCGTTACCCATTTCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCATCAACGGtt < 1:366456/69‑1 (MQ=255)
cGTTACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCa < 1:2070328/69‑1 (MQ=255)
cGTTACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCa < 1:2840038/69‑1 (MQ=255)
cGTTACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCa < 1:1231882/69‑1 (MQ=255)
cGTTACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCa < 1:3426235/69‑1 (MQ=255)
cGTTACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCa < 1:1361933/69‑1 (MQ=255)
ttACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCTTCAACGGTTTCCAGc > 1:256411/1‑69 (MQ=255)
ttACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCAg > 1:3154430/1‑68 (MQ=255)
ttACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCAGc > 1:381918/1‑69 (MQ=255)
ttACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCAGc > 1:3267939/1‑69 (MQ=255)
ttACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCAGc > 1:2966784/1‑69 (MQ=255)
ttACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCAGc > 1:3130476/1‑69 (MQ=255)
ttACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCAGc > 1:1072470/1‑69 (MQ=255)
ttACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCAGc > 1:197805/1‑69 (MQ=255)
ttACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCAGc > 1:1784708/1‑69 (MQ=255)
ttACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCAGc > 1:1773373/1‑69 (MQ=255)
ttACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCAGc > 1:1726204/1‑69 (MQ=255)
ttACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCAGc > 1:1267579/1‑69 (MQ=255)
ttACCCATTTTCGTCCCGTCTTTCAGGGCGTGCGCGTTCCGGTTGATTACATCCTCAACGGTTTCCAGc > 1:1477595/1‑69 (MQ=255)
ccATTTCCGTCCCGTCTTCCAGGGGGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAAt < 1:3155063/68‑1 (MQ=255)
ccATTTCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAAt < 1:1294745/68‑1 (MQ=255)
ccATTTCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAAt < 1:1295739/68‑1 (MQ=255)
ccATTTCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAAt < 1:1657711/68‑1 (MQ=255)
ccATTTCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAAt < 1:2151737/68‑1 (MQ=255)
ccATTTCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAAt < 1:431994/68‑1 (MQ=255)
ccATTTCCGTCCCGTCTTCCAGGGCGTGCGCGGTCCGGTTGATTATATCCTCAACGGTTTCCAGCAAt < 1:3260701/68‑1 (MQ=255)
tCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATtgctgc > 1:2711696/1‑69 (MQ=255)
tCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATtgctgc > 1:2643039/1‑69 (MQ=255)
tCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATtgctgc > 1:1229880/1‑69 (MQ=255)
tCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATtgctgc > 1:3258793/1‑69 (MQ=255)
tCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATtgctgc > 1:1736385/1‑69 (MQ=255)
tCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATtgctgc > 1:178044/1‑69 (MQ=255)
tCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATtgctg > 1:3022893/1‑68 (MQ=255)
tCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATtgctcc > 1:2624381/1‑67 (MQ=255)
tcccgtcTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:1192398/69‑1 (MQ=255)
tcccgtcTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:743315/69‑1 (MQ=255)
tcccgtcTTCCAGGGCGTGCGCGGTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:3062834/69‑1 (MQ=255)
cccgtcTTCCAGGGCTTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGc < 1:601407/55‑1 (MQ=255)
cccgtcTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGc < 1:1605890/55‑1 (MQ=255)
cccgtcTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGc < 1:453319/55‑1 (MQ=255)
tCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGtt < 1:906136/42‑1 (MQ=255)
cGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCa > 1:1395975/1‑42 (MQ=255)
cGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCa < 1:2568492/42‑1 (MQ=255)
cGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCa < 1:2515271/42‑1 (MQ=255)
cGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCa > 1:2209946/1‑42 (MQ=255)
cgcgTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:368088/50‑1 (MQ=255)
cgcgTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:1128236/50‑1 (MQ=255)
cgcgTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:464369/50‑1 (MQ=255)
cgcgTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:2989008/50‑1 (MQ=255)
cgcgTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:2747516/50‑1 (MQ=255)
cgcgTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:2690359/50‑1 (MQ=255)
cgcgTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:2688848/50‑1 (MQ=255)
cgcgTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:2180151/50‑1 (MQ=255)
cgcgTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:2046439/50‑1 (MQ=255)
cgcgTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:1850369/50‑1 (MQ=255)
cgcgTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:1644230/50‑1 (MQ=255)
cgcgTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:1463773/50‑1 (MQ=255)
cgcgTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:1213964/50‑1 (MQ=255)
gcgTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg < 1:2870807/49‑1 (MQ=255)
gATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg > 1:2543280/1‑38 (MQ=255)
gATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg > 1:2275724/1‑38 (MQ=255)
gATTATATCCTCAACGGTTTCCAGCAATTGCTGCTggg > 1:2227828/1‑38 (MQ=255)
|
GAAGGGATCGACTGGGTCGTTACCCATTTCCGTCCCGTCTTCCAGGGCGTGCGCGTTCCGGTTGATTATATCCTCAACGGTTTCCAGCAATTGCTGCTGGG > minE/1799382‑1799482
|
| 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
