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 |
|
A1 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
306,593 |
T→C |
26.2% |
N655S (AAC→AGC) |
yagX ← |
predicted aromatic compound dioxygenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 306,593 | 0 | T | C | 26.2%
| 66.0
/ 26.1
| 42 | N655S (AAC→AGC) | yagX | predicted aromatic compound dioxygenase |
| Reads supporting (aligned to +/- strand): ref base T (19/12); new base C (7/4); total (26/16) |
| 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 |
CGTCCTCCAGCCCGGTGTTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACGTAGCCGTCCGCCGCGCTATT > W3110S.gb/306528‑306663
|
cgtcCTCCAGCCCGGTGTTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGCTTTTa > 1:3843670/1‑71 (MQ=255)
gtgtTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGtttt > 1:2895877/1‑55 (MQ=255)
gtgtTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTAccc < 1:1312427/60‑1 (MQ=255)
gtTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGCTTTTACCCTg > 1:2221455/1‑60 (MQ=255)
gtTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGCTTTTACCCTGCCAGCCGACGc > 1:2592565/1‑71 (MQ=255)
ttGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCt > 1:1102436/1‑71 (MQ=255)
ttGAATATCACACCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCt > 1:1320154/1‑71 (MQ=255)
gAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGtttt > 1:2838998/1‑50 (MQ=255)
gAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGtttt > 1:435342/1‑50 (MQ=255)
gAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGa > 1:4256144/1‑65 (MQ=255)
gAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGc > 1:852700/1‑71 (MQ=255)
gAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGc > 1:1587267/1‑71 (MQ=255)
aaTATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGc > 1:3297202/1‑70 (MQ=255)
aaTATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGc < 1:2163701/70‑1 (MQ=255)
atatCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGc < 1:155707/69‑1 (MQ=255)
atatCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCa > 1:2259845/1‑71 (MQ=255)
atatCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCa > 1:1318739/1‑71 (MQ=255)
tatCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTAcc > 1:3895851/1‑51 (MQ=255)
atCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGcc < 1:839421/59‑1 (MQ=255)
tCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGCCAtt > 1:1952830/1‑70 (MQ=255)
tCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGCCATTg > 1:2507876/1‑71 (MQ=255)
aCCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGc > 1:4270568/1‑71 (MQ=255)
aCCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGc > 1:3398662/1‑71 (MQ=255)
ccccAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGtttt < 1:2993906/42‑1 (MQ=255)
gCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGtt < 1:1197444/35‑1 (MQ=255)
gCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGtt < 1:3444350/35‑1 (MQ=255)
cGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAg > 1:3767010/1‑71 (MQ=255)
ccATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGt < 1:2984227/71‑1 (MQ=255)
ccATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGt < 1:3087651/71‑1 (MQ=255)
tCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTAtt > 1:1140110/1‑71 (MQ=255)
tCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGCCGGTCAAGTTGGTAtt < 1:2509039/71‑1 (MQ=255)
tCCGCCCGCTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTgg < 1:4528609/63‑1 (MQ=255)
ccgcccgcTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACg > 1:2667903/1‑70 (MQ=255)
cgcccgcTGGCAGCAATGTTTTTACCCTGCCAGCCGATGCTGCCATTGGCGGTCAAGTTGGTATTGACGTa < 1:2125504/71‑1 (MQ=255)
cgcccgcTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGc < 1:3411065/43‑1 (MQ=255)
cgcccgcTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGCCAtt > 1:3905872/1‑47 (MQ=255)
gcccgcTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACGTAg < 1:3692781/71‑1 (MQ=255)
ccgcTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTg > 1:2710775/1‑57 (MQ=255)
cgcTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTAtt < 1:926423/61‑1 (MQ=255)
tGGCAGCAATCTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTAtt < 1:452690/58‑1 (MQ=255)
ggCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACGTa > 1:304410/1‑63 (MQ=255)
cagcaATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGtt > 1:2978977/1‑49 (MQ=255)
cagcaATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGtt > 1:2792217/1‑49 (MQ=255)
caATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGa > 1:1309295/1‑54 (MQ=255)
aaTGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACGTAGCCGTc < 1:3143230/63‑1 (MQ=255)
aTGCTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTa > 1:439407/1‑48 (MQ=255)
aTGCTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACGTAGCCGTCCGCCGCGCt < 1:1332658/71‑1 (MQ=255)
tGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTgg < 1:1759576/45‑1 (MQ=255)
tttttACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACGTAGCCGTCCGCCGCGCTa > 1:310117/1‑69 (MQ=255)
tttttACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACGTAGCCGTCCGCCGCGCTAtt < 1:4119076/71‑1 (MQ=255)
|
CGTCCTCCAGCCCGGTGTTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACGTAGCCGTCCGCCGCGCTATT > W3110S.gb/306528‑306663
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
