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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,497,222 |
A→G |
25.0% |
Y59H (TAT→CAT) |
oxc ← |
predicted oxalyl‑CoA decarboxylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,497,222 | 0 | A | G | 25.0%
| 60.8
/ 20.8
| 36 | Y59H (TAT→CAT) | oxc | predicted oxalyl‑CoA decarboxylase |
| Reads supporting (aligned to +/- strand): ref base A (15/12); new base G (5/4); total (20/16) |
| 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 |
ATCCTGGCGCAGAAACTGTCAGGCAGATCCCCGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCTCATGACGAAAACCAATATAACGAATGCCTTCCGCCTGGGCATG > W3110S.gb/2497153‑2497279
|
aTCCTGGCGCAGAAACTGTCAGGCAGATCCCCGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATAg < 1:602282/71‑1 (MQ=255)
aTCCTGGCGCAGAAACTGTCAGGCAGATCCCCGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATAg < 1:2213929/71‑1 (MQ=255)
cTGGCGCAGAAACTGTCAGGCAGATCCCTGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATGGCCt > 1:501858/1‑71 (MQ=255)
cTGGCGCAGAAACTGTCAGGCAGATCCCCGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATGGCCt > 1:493688/1‑71 (MQ=255)
ggCGCAGAAACTGTCAGGCAGATCCCCGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCCTGGCCTGc > 1:3934257/1‑71 (MQ=255)
ggCGCAGAAACTGTCAGGCAGATCCCCGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATAGCCTGc > 1:337815/1‑71 (MQ=255)
cgcAGAAACTGTCAGGCAGATCCCCGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATAGCCTGcc < 1:3129191/70‑1 (MQ=255)
cAGAAACTGTCAGGCAGATCCCCGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATAGCCTGcc < 1:118620/68‑1 (MQ=255)
aaCTGTCAGGCAGATCCCCGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCt > 1:3572201/1‑71 (MQ=255)
aaCTGTCAGGCAGATCCACGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCt > 1:2322376/1‑71 (MQ=255)
aGGCAGATCCCCGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCTAATGAc > 1:691113/1‑70 (MQ=255)
aGATCCCCGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCTCATGACGaaaa > 1:1326067/1‑71 (MQ=255)
gATCCCCGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCTCATGACGaa < 1:1459465/68‑1 (MQ=255)
gATCCCCGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCTCATGACGaa < 1:843001/68‑1 (MQ=255)
aTCCCCGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATGGCCTGCCGACTGCTCATGACGAAAAcc < 1:94846/71‑1 (MQ=255)
ccccGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGTCATAGCCTGCCGACTGCTCATGACGAAAACCaa > 1:1599185/1‑71 (MQ=255)
ccccGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCTCATGACGAAAACCaa > 1:632622/1‑71 (MQ=255)
ccccGGTTTTTGGGTAAGAAAACCGCTCGCCGCAGCGGCATAGCCTGCCGACTGCTCATGACGAAAACCaa > 1:3376149/1‑71 (MQ=255)
tttGGGTAAGAAAACCGCTTGCCGCAGCGGCATGGCCTGCCGACTGCTCATGACGAAAACCAATATAACg > 1:1899978/1‑70 (MQ=255)
tttGGGTAAGAAAACCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCTCATGACGAAAACCAATATAACg < 1:1209434/70‑1 (MQ=255)
gTAAGAAAACCGCTTGCCGCAGCGGCATGGCCTGCCGACTGCTCATGACGAAAACCAatat < 1:1867255/61‑1 (MQ=255)
gTAAGAAAACCGCTTGCCGCAGCGGCATGGCCTGCCGACTGCTCATGACGAAAACCAATATAACGaa < 1:737382/67‑1 (MQ=255)
aaaaCCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCTCATg > 1:2165976/1‑42 (MQ=255)
aaaaCCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCTCATGACGAAAACCAATATAACGaa > 1:636419/1‑62 (MQ=255)
aaaaCCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCTCATGACGAAAACCAATATAACGaa > 1:2164264/1‑62 (MQ=255)
aaaaCCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCTCATGACGAAAACCAATATAACGaa > 1:1890040/1‑62 (MQ=255)
aaaaCCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCTCATGACGAAAACCAATATAACGAATGCCTTcc < 1:2340301/70‑1 (MQ=255)
aaaCCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCTCa > 1:693225/1‑39 (MQ=255)
aaCCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCTCATGACGAAAACCAATATAACGAATGCCTTCCGcc < 1:2768673/71‑1 (MQ=255)
gCTTGCCGCAGCGGCATAGCCTGCCGACTGCTCATGACGAAAACCAATATAACGAATGCCTTCCGCCTggg < 1:3612274/71‑1 (MQ=255)
gCCGCAGCGGCATAGCCTGCCGACTGCTCATGACGAAAACCAATATAACGAATGCCTTCCGCCTGGGCATg > 1:2534259/1‑71 (MQ=255)
gCAGCGGCATGGCCTGCCGACTGCTCATGACGAAAACCAATATAACg < 1:296357/47‑1 (MQ=255)
aGCGGCATGGCCTGCCGACTGCTCATGACGAAAACCAATATAACGaa > 1:888618/1‑47 (MQ=255)
gCGGCATAGCCTGCCGACTGCTCATGACGAAAAcc < 1:2134802/35‑1 (MQ=255)
aTAGCCTGCCGACTGCTCATGACGAAAACCAATATAACGAATGCCTTCCGCCt > 1:3711002/1‑53 (MQ=255)
tAGCCTGCCGACTGCTCATGACGAAAACCAATATAACg < 1:3015251/38‑1 (MQ=255)
|
ATCCTGGCGCAGAAACTGTCAGGCAGATCCCCGGTTTTTGGGTAAGAAAACCGCTTGCCGCAGCGGCATAGCCTGCCGACTGCTCATGACGAAAACCAATATAACGAATGCCTTCCGCCTGGGCATG > W3110S.gb/2497153‑2497279
|
| 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
