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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,941,702 |
T→G |
29.2% |
intergenic (+141/+55) |
ygfZ → / ← yqfA |
predicted folate‑dependent regulatory protein/predicted oxidoreductase, inner membrane subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,941,702 | 0 | T | G | 29.2%
| 72.4
/ 64.8
| 77 | intergenic (+141/+55) | ygfZ/yqfA | predicted folate‑dependent regulatory protein/predicted oxidoreductase, inner membrane subunit |
| Reads supporting (aligned to +/- strand): ref base T (24/30); new base G (10/12); total (34/43) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-01 |
ATCACAACAGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCATACCCATTACGCCTGCCCAA > minE/1941639‑1941770
|
aTCACAACAGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATg < 1:346469/70‑1 (MQ=255)
aTCACAACAGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGc > 1:2374481/1‑71 (MQ=255)
tCACAACAGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCg < 1:2804215/66‑1 (MQ=255)
acaacaGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTg < 1:3901166/71‑1 (MQ=255)
caacaGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTg < 1:2732458/70‑1 (MQ=255)
acaGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATg > 1:3508359/1‑71 (MQ=255)
caGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGc < 1:3592745/71‑1 (MQ=255)
gggACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGa < 1:3009107/71‑1 (MQ=255)
ggACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGa < 1:1252176/65‑1 (MQ=255)
ggACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGa < 1:3084413/65‑1 (MQ=255)
ggatcggtaggccggataaggcgtttatgccgcATCCGGCAGTTATGCGCAGATGCCTGATGCGACGC‑Tgg > 1:3895929‑M2/34‑71 (MQ=255)
ggCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGgc < 1:214341/71‑1 (MQ=255)
gatcggtaggccggataaggcgtttatgccgcATCCGGCAGTTATGCGCAGATGCCTGATGCGACGC‑TGgc > 1:1389578‑M2/33‑71 (MQ=255)
gatcggtaggccggataaggcgtttatgccgcATCCGGCAGTTATGCGCAGATGCCTGATGCGACGC‑TGgc < 1:1573900‑M2/39‑1 (MQ=255)
gatcggtaggccggataaggcgtttatgccgcATCCGGCAGTTATGCGCAGATGCCTGATGCGACGC‑TGgc < 1:3416521‑M2/39‑1 (MQ=255)
cccGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGgcgc < 1:1035159/71‑1 (MQ=255)
cGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGgc > 1:721399/1‑67 (MQ=255)
gtaggccggataaggcgtttatgccgcATCCGGCAGTTATGCGCAGATGCCTGATGCGACGC‑TGGCGCGTc < 1:2360204‑M2/44‑1 (MQ=255)
gTAGATCGGATAAGGCTTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTc < 1:680415/71‑1 (MQ=255)
gTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑Tg > 1:1105797/1‑64 (MQ=255)
gTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGgcgc > 1:1006972/1‑68 (MQ=255)
gTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTc > 1:3656583/1‑71 (MQ=255)
tAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCt > 1:3580549/1‑71 (MQ=255)
tAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCt > 1:1806659/1‑71 (MQ=255)
aGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCt > 1:343487/1‑70 (MQ=255)
aGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCt < 1:1056558/70‑1 (MQ=255)
aGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCt > 1:870230/1‑70 (MQ=255)
ggccggataaggcgttcacgccgcATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGC‑TAACGCGTCtt < 1:133151‑M2/46‑1 (MQ=255)
gATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCtt < 1:3064611/70‑1 (MQ=255)
gacggataaggcgtttacgccgcATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGC‑TGGCGCGTCTTAt < 1:1662265‑M2/48‑1 (MQ=255)
gacggataaggcgtttacgccgcATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGC‑TGGCGCGTCTTAt < 1:2368052‑M2/48‑1 (MQ=255)
ccggaaaaggcgttcacgccgcATCCGGCAGTCGTGCGCAGATGcc > 1:648346‑M2/23‑46 (MQ=255)
cggataaggcgtttatgccgcATCCGGCAGTTATGCGCAGATGCCTGATGCGACGC‑TGGCGCGTCTTATCa > 1:987682‑M2/22‑71 (MQ=255)
cggataaggcgttcacgccgcATCCGGCAGTCGTGCGCC‑ATGCCTGATGCGACGCTTTGCGCGTCTTATc < 1:2904295‑M2/49‑1 (MQ=255)
cGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGgc < 1:2766836/60‑1 (MQ=255)
ggataaggcgttcacgccgcATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGC‑TAACGCGTCTTATCAg < 1:1554587‑M2/51‑1 (MQ=255)
ggATAAGGTGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAg > 1:301015/1‑71 (MQ=255)
ggATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAg < 1:101681/71‑1 (MQ=255)
ggATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAg > 1:3441355/1‑71 (MQ=255)
gataaggcgtttatgccgcATCCGGCAGTTATGCGCAGATGCCTGATGCGACGC‑TGGCGCGTCTTAtcatg < 1:1401336‑M2/52‑3 (MQ=255)
gataaggcgtttatgccgcATCCGGCAGTTATGCGCAGATGCCTGATGCGACGC‑TGGCGCGTCTTAtcatg > 1:3861018‑M2/20‑69 (MQ=255)
gATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TTGCGCGTCTTATCAgg > 1:3149341/1‑71 (MQ=255)
ataaggcgttcacgccgcATCCGGCAGTTGTGCACCAATgct < 1:3276618‑M2/24‑2 (MQ=255)
aTAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGc > 1:2086588/1‑71 (MQ=255)
taaggcgttcacgccgcATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGC‑t > 1:283239‑M2/18‑53 (MQ=255)
taaggcgttcacgccgcATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGC‑TAACGCGTCTTATCAGAcc < 1:3457494‑M2/54‑1 (MQ=255)
aaggcgttcacgccgcATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGC‑TAACGCGTCTTATCAGAcc > 1:230984‑M2/17‑70 (MQ=255)
ggCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTa > 1:3348871/1‑70 (MQ=255)
gcgttcacgccgcATCCGGCAGTCGTGCGCC‑ATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTAc < 1:877651‑M2/57‑1 (MQ=255)
cgttcacgccgcATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGC‑TAACGCGTCTTATCAGGCCTACaa < 1:1261151‑M2/59‑1 (MQ=255)
cGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACaa < 1:2028191/71‑1 (MQ=255)
cGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACaa < 1:803310/71‑1 (MQ=255)
gTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACaaa < 1:225786/71‑1 (MQ=255)
gTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACa > 1:1005245/1‑69 (MQ=255)
ttCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAg < 1:1800337/71‑1 (MQ=255)
ttCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAg > 1:3858277/1‑71 (MQ=255)
tcacgccgcATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGC‑TAACGCGTCTTATCAGACCTacaaatt > 1:3835603‑M2/10‑69 (MQ=255)
tCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGAt < 1:1322856/37‑1 (MQ=255)
cACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAgg > 1:335590/1‑70 (MQ=255)
cACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAgg > 1:370796/1‑70 (MQ=255)
aCGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCa > 1:2875286/1‑71 (MQ=255)
ccgcATCCGGCAGTTATGCGCAGATGCCTGATGCGACGC‑TGGCGCGTCTTATCATGCCTAc > 1:876036‑M2/5‑61 (MQ=255)
ccGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCATAc > 1:2790125/1‑71 (MQ=255)
cgcATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGC‑TGGCGCGTCTTATCATGCCTacg > 1:3914912‑M2/4‑60 (MQ=255)
cGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCATAcc > 1:3800541/1‑71 (MQ=255)
aaTCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCATACCCa > 1:2383334/1‑71 (MQ=255)
tCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCATACCCAtt < 1:1176943/71‑1 (MQ=255)
cGGCAGTTGTGCTCCGATGCCTGATGTGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCATACCCATTAc < 1:413252/71‑1 (MQ=255)
cGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCATACCCATTAc < 1:3625777/71‑1 (MQ=255)
cGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCATACCCATTAc < 1:2323387/71‑1 (MQ=255)
cAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCCTACCCATTa > 1:584861/1‑67 (MQ=255)
ttGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACaa < 1:1915082/50‑1 (MQ=255)
gtgCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCATAc < 1:61827/56‑1 (MQ=255)
gtgCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCATAc < 1:1648832/56‑1 (MQ=255)
tgCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCATACCCATTACGCCTGCCCa < 1:579702/71‑1 (MQ=255)
cTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCATACCCATTACGCCTGCCCaa < 1:2030895/70‑1 (MQ=255)
cTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCATACCCATTACGCCTGCCCaa < 1:2755114/70‑1 (MQ=255)
|
ATCACAACAGGGACGAGGCCCGTAGATCGGATAAGGCGTTCACGCCGAATCCGGCAGTTGTGCTCCGATGCCTGATGCGACGC‑TGGCGCGTCTTATCAGGCCTACAAAGGCATACCCATTACGCCTGCCCAA > minE/1941639‑1941770
|
| 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
