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 |
3,093,680 |
G→A |
10.2% |
H19H (CAC→CAT) |
yggR ← |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,093,680 | 0 | G | A | 10.2%
| 141.1
/ 5.5
| 49 | H19H (CAC→CAT) | yggR | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base G (31/13); new base A (2/3); total (33/16) |
| Fisher's exact test for biased strand distribution p-value = 3.13e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01 |
CGGCGTATCAAACGGCGCAGCTTCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCACAATTTCTTCCATATTCATACT > W3110S.gb/3093611‑3093739
|
cGGCGTATCAAACGGCGCAGCTTCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAgg > 1:2933524/1‑70 (MQ=255)
cGTATCAAACGGCGCAGCTTCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGgt > 1:510341/1‑68 (MQ=255)
tCAAACGGCGCAGCTTCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATc > 1:2158085/1‑71 (MQ=255)
cAAACGGCGCAGCTTCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTa > 1:1785660/1‑66 (MQ=255)
aaccGGCGCAGCTTCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATcc < 1:882912/67‑1 (MQ=255)
aaaCGGCGCAGCTTCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATcc < 1:3266790/70‑1 (MQ=255)
aaCGGCGCAGCTTCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCga < 1:317581/71‑1 (MQ=255)
aaCGGCGCAGCTTCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGATGAAGATCCga < 1:3246023/71‑1 (MQ=255)
cGGCGCAGCTTCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCgaga > 1:244933/1‑71 (MQ=255)
tcgcAGCTTCCATTCTGCCGCGAATGCGCCATCGTGC‑GGCCAGGCGCTGCACAGGTGTAGATCCGAGACGt < 1:3671884/70‑1 (MQ=255)
gcAGCTTCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGgtgt < 1:2061029/57‑1 (MQ=255)
aGCTTCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATcc < 1:1632873/61‑1 (MQ=255)
aGCTTCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTAt > 1:4010114/1‑71 (MQ=255)
tCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTTTAGATCCGAGACGTTATGCtt > 1:17865/1‑71 (MQ=255)
tCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCtt > 1:4338065/1‑71 (MQ=255)
tCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCtt > 1:3682369/1‑71 (MQ=255)
tCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCtt > 1:4457326/1‑71 (MQ=255)
tCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCtt > 1:3744830/1‑71 (MQ=255)
ccATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCtt < 1:227036/70‑1 (MQ=255)
cATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCttt > 1:3752535/1‑70 (MQ=255)
cATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTa > 1:409766/1‑71 (MQ=255)
cATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTa > 1:1180558/1‑71 (MQ=255)
ttCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATc > 1:2305875/1‑52 (MQ=255)
tCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAgg < 1:928426/43‑1 (MQ=255)
cTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTacac > 1:4279386/1‑70 (MQ=255)
cTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTacac > 1:3933027/1‑70 (MQ=255)
cTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTacac > 1:963427/1‑70 (MQ=255)
gcgAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCt > 1:1100260/1‑59 (MQ=255)
cgAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGATGTAGATCCGAGACGTTATGCTTTACACTAAGGGc > 1:1831260/1‑71 (MQ=255)
aTGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTACACTAAGGGCcac < 1:1105943/71‑1 (MQ=255)
cgcCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCtt < 1:2810291/53‑1 (MQ=255)
cgcCATCGTGCGGGCCAGGCGCTGCACAGATGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCACaa < 1:734174/70‑1 (MQ=255)
tCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCACAATttctt > 1:550746/1‑71 (MQ=255)
cGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCACAATttcttc > 1:3361489/1‑71 (MQ=255)
gTGCGGGCCAGGCGCTGCACAGGTGTAGATCCTAGACGTTATGCTTTACACTAAGGGCCACAAttt > 1:811786/1‑66 (MQ=255)
gTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTaca > 1:206176/1‑50 (MQ=255)
gTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTa > 1:4574095/1‑48 (MQ=255)
gTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTACACTAAg > 1:3336600/1‑55 (MQ=255)
gTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTACACTAAg > 1:2051559/1‑55 (MQ=255)
gTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCACAATttcttc > 1:334085/1‑70 (MQ=255)
gTGCGGGCCAGGCGCTGAACAGGTGTAGATCCGAGACGt > 1:4119638/1‑39 (MQ=255)
cGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCAAAATTTCTTCCat < 1:2512496/70‑1 (MQ=255)
ggCCAGGCGCTGCACAGATGTAGATCCGAGACGTTATGCTTTACACTAAGGGCcaca < 1:4025908/57‑1 (MQ=255)
gCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCACAATTTCTTCCATATTc < 1:1617072/71‑1 (MQ=255)
cAGGCGCTGCACAGATGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCACAATTTCTTCCATATTCa > 1:1126427/1‑70 (MQ=255)
aGGCGCTGCACAGGTGTAGATCCGAGACGTTATGc < 1:1216796/35‑1 (MQ=255)
gcTGCACAGGTGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCACAATTTCTTCCATATTCa > 1:1390802/1‑65 (MQ=255)
gcTGCACAGGTGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCACAATTTCTTCCATATTCa > 1:4063903/1‑65 (MQ=255)
gcTGCACAGGTGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCACAATTTCTTCCATATTCATACt > 1:1476281/1‑69 (MQ=255)
gcTGCACAGGTGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCACAATTTCTTCCATATTCATACt > 1:967439/1‑69 (MQ=255)
tGCACATGTGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCACAATttc < 1:279875/52‑1 (MQ=255)
tGCACAGGTGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCACAATTTCTTCCATATTCATACt > 1:1201433/1‑67 (MQ=255)
cacaGGTGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCACAATTTCTTCCatat < 1:1191700/58‑1 (MQ=255)
gtgtAGATCCGAGACGTTATGCTTTACACTAAGGGCCACAATTTCTTCCa < 1:3744335/50‑1 (MQ=255)
|
CGGCGTATCAAACGGCGCAGCTTCCATTCTGCCGCGAATGCGCCATCGTGCGGGCCAGGCGCTGCACAGGTGTAGATCCGAGACGTTATGCTTTACACTAAGGGCCACAATTTCTTCCATATTCATACT > W3110S.gb/3093611‑3093739
|
| 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
