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 |
511,646 |
T→A |
44.9% |
S563S (TCT→TCA) |
ybhJ → |
predicted hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 511,646 | 0 | T | A | 44.9%
| 17.0
/ 73.1
| 69 | S563S (TCT→TCA) | ybhJ | predicted hydratase |
| Reads supporting (aligned to +/- strand): ref base T (10/28); new base A (11/20); total (21/48) |
| Fisher's exact test for biased strand distribution p-value = 4.42e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCCTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTATGTTAG > minE/511591‑511711
|
tCCTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAAt > 1:2343647/1‑68 (MQ=255)
tCCTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAAt > 1:3225434/1‑68 (MQ=255)
tCCTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAAt > 1:3330267/1‑68 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:3398199/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:2646150/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:2644016/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:2635210/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:2723086/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:2444513/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:2423195/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:237039/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:2240044/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:33236/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:3418584/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:369749/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:1181678/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:555801/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:1206955/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:980240/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:1137158/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:1331755/61‑1 (MQ=255)
ccTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:1540167/61‑1 (MQ=255)
cgaAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGAtt < 1:1690394/67‑1 (MQ=255)
cgaAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTgg < 1:2610250/69‑1 (MQ=255)
cgaAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTgg < 1:3189917/69‑1 (MQ=255)
cgaAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTgg < 1:2417674/69‑1 (MQ=255)
cgaAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTgg < 1:2549669/69‑1 (MQ=255)
cgaAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTgg < 1:2369116/69‑1 (MQ=255)
cgaAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTgg < 1:2188431/69‑1 (MQ=255)
cgaAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTgg < 1:2165048/69‑1 (MQ=255)
cgaAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTgg < 1:993353/69‑1 (MQ=255)
cgaAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTgg < 1:605804/69‑1 (MQ=255)
cgaAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTgg < 1:1949134/69‑1 (MQ=255)
cgaAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTgg < 1:162313/69‑1 (MQ=255)
cgaAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTgg < 1:528054/69‑1 (MQ=255)
gaAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTgg < 1:1970466/68‑1 (MQ=255)
acgaACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTgg < 1:689154/52‑1 (MQ=255)
acgaACTGATTCCTTCCGGTGAAACCTCTTCATATCGt < 1:705461/38‑1 (MQ=255)
gaACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTgg < 1:471892/50‑1 (MQ=255)
gATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATcc < 1:1060342/39‑1 (MQ=255)
gATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATcc < 1:2792402/39‑1 (MQ=255)
gATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATcc < 1:3052929/39‑1 (MQ=255)
gATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATcc < 1:1193270/39‑1 (MQ=255)
gATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATcc < 1:3222281/39‑1 (MQ=255)
gATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATcc < 1:1244808/39‑1 (MQ=255)
gATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATcc < 1:3373777/39‑1 (MQ=255)
gATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATcc < 1:2147161/39‑1 (MQ=255)
gATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGtctc > 1:364335/1‑68 (MQ=255)
gATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTcg > 1:109350/1‑69 (MQ=255)
gATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTcg > 1:1554261/1‑69 (MQ=255)
gATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTcg > 1:2325798/1‑69 (MQ=255)
gATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTcg > 1:2135118/1‑69 (MQ=255)
gAAACCTCTTCTTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGt > 1:1786213/1‑69 (MQ=255)
gAAACCTCTTCATATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACTCTGTCAcgccgat > 1:1412195/1‑59 (MQ=255)
gAAACCTCTTCATATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACTCTGTCACGCCGCGATCCAggg > 1:3176068/1‑68 (MQ=255)
gAAACCTCTTCATATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACTCTGTCACGCCGCGATCCAgg > 1:1107020/1‑68 (MQ=255)
gAAACCTCTTCATATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACTCTGTCACGCCGCGATCCAGGt > 1:2762203/1‑69 (MQ=255)
gAAACCTCTTCATATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACTCTGTCACGCCGCGATCCAGGt > 1:44516/1‑69 (MQ=255)
gAAACCTCTTCATATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACTCTGTCACGCCGCGATCCAGGt > 1:1934504/1‑69 (MQ=255)
gAAACCTCTTCATATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACTCTGTCACGCCGCGATCCAGGt > 1:2297477/1‑69 (MQ=255)
gAAACCTCTTCATATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACTCTGTCACGCCGCGATCCAGGt > 1:2550664/1‑69 (MQ=255)
gAAACCTCTTCATATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACTCTGTCACGCCGCGATCCAGGt > 1:2921522/1‑69 (MQ=255)
gAAACCTCTTCATATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACTCTGTCACGCCGCGATCCAGGt > 1:24264/1‑69 (MQ=255)
gAAACCTCTTCATATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACTCTGTCACGCCGCGATCCAGGt > 1:2438641/1‑69 (MQ=255)
aCCTCTTCTTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTa < 1:2559533/68‑1 (MQ=255)
aCCTCTTCTTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTa < 1:2224982/68‑1 (MQ=255)
aCCTCTTCTTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTa > 1:1179/1‑68 (MQ=255)
aCCTCTTCTTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTa < 1:491834/68‑1 (MQ=255)
aCCTCTTCTTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTa < 1:340364/68‑1 (MQ=255)
tcttctTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTATGtt < 1:386894/69‑1 (MQ=255)
tcttctTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTATGtt < 1:209880/69‑1 (MQ=255)
tcttctTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTATGtt < 1:533397/69‑1 (MQ=255)
tcttctTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTATGtt < 1:1644619/69‑1 (MQ=255)
tcttctTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTATGtt < 1:1184506/69‑1 (MQ=255)
tcttctTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTATGtt < 1:2189004/69‑1 (MQ=255)
tcttctTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTATGtt < 1:2220091/69‑1 (MQ=255)
cttATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTATGTTAg < 1:2108237/67‑1 (MQ=255)
cttATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTATGTTAg < 1:1677678/67‑1 (MQ=255)
cttATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTATGTTAg < 1:2797675/67‑1 (MQ=255)
|
TCCTCGACGAAGTGACCACCACCGACGAACTGATTCCTTCCGGTGAAACCTCTTCTTATCGTTCAAATCCGATTGGTCTGGCGGAGTTTACCCTGTCTCGCCGCGATCCCGGTTATGTTAG > minE/511591‑511711
|
| 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
