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 |
2,761,918 |
G→A |
62.3% |
Q244Q (CAG→CAA) |
aroE → |
dehydroshikimate reductase, NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,761,918 | 0 | G | A | 62.3%
| 24.7
/ 32.4
| 53 | Q244Q (CAG→CAA) | aroE | dehydroshikimate reductase, NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base G (5/15); new base A (14/19); total (19/34) |
| Fisher's exact test for biased strand distribution p-value = 2.47e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTGTGAGCAGCGAGGCTCAAAGCGTAATGCTGATGGTTTAGGAATGCTGGTGGCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGGTGTTCTGCCTGACGTAGAACCAGTTATAAAGCAATTGC > minE/2761861‑2761985
|
gtgtGAGCAGCGAGGCTCAAAGCGTAATGCTGATGGTTTAGGAATGCTGGTGGCACAGGCGGCTCATGc < 1:1671792/69‑1 (MQ=255)
gtgtGAGCAGCGAGGCTCAAAGCGTAATGCTGATGGTTTAGGAATGCTGGTGGCACAGGCGGCTCATGc < 1:3398343/69‑1 (MQ=255)
gtgtGAGCAGCGAGGCTCAAAGCGTAATGCTGATGGTTTAGGAATGCTGGTGGCACAGGCGGCTCATGc < 1:1899841/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:3024171/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:1843772/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:1886714/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:1909281/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:1991476/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:2202499/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:2971554/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:2400011/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:3067986/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:3072039/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:3230991/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:3427529/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:37932/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:882152/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:1753441/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:1785472/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:1585827/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:1129685/69‑1 (MQ=255)
gtgAGCAGCGAGGCTCAAAACGTACTGCTGATGGTTTAGGAATGCTGGTGGCACAAGCGGCTCATGCCt < 1:1038919/69‑1 (MQ=255)
gCGTAATGCTGATGGTTTAGGAATGCTGGTGGCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGgtgt < 1:1511426/69‑1 (MQ=255)
gCGTAATGCTGATGGTTTAGGAATGCTGGTGGCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGgtgt < 1:872131/69‑1 (MQ=255)
gCGTAATGCTGATGGTTTAGGAATGCTGGTGGCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGgtgt < 1:3340929/69‑1 (MQ=255)
gCGTAATGCTGATGGTTTAGGAATGCTGGTGGCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGgtgt < 1:1062070/69‑1 (MQ=255)
cGTAATGCTGATGGTTTAGGAATGCTGGTGGCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGgtgt < 1:1289029/68‑1 (MQ=255)
cGTAATGCTGATGGTTTAGGAATGCTGGTGGCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGgtgt < 1:2820781/68‑1 (MQ=255)
aTGCTGATGGTTTAGGAATGCTGGTGGCACAGGCGGCTCATGCCTttct < 1:2947887/49‑1 (MQ=255)
aTGCTGATGGTTTAGGAACGCTGGTGGCACAGGCGGCTCATGCCTttct < 1:243358/49‑1 (MQ=255)
cTGGTGGCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGGTGTTCTGCCTGACGTAGAACCAGTta > 1:1144376/1‑67 (MQ=255)
cTGGTGGCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGGTGTTCTGCCTGACGTAGAACCAGTta > 1:3126813/1‑67 (MQ=255)
gtggCACAAGCGGCTCATGCCTTCCTTCTTTGGCATGGCGTTCTGCCTGATGTAGAACCGGTCATcaa > 1:399911/1‑68 (MQ=255)
gtggCACAAGCGGCTCATGCCTTCCTTCTTTGGCATGGCGTTCTGCCTGATGTAGAACCGGTCATcaa > 1:427636/1‑68 (MQ=255)
gtggCACAAGCGGCTCATGCCTTCCTTCTTTGGCATGGCGTTCTGCCTGATGTAGAACCGGTCATcaa > 1:608718/1‑68 (MQ=255)
gtggCACAAGCGGCTCATGCCTTCCTTCTTTGGCATGGCGTTCTGCCTGATGTAGAACCGGTCATcaa > 1:67670/1‑68 (MQ=255)
gtggCACAAGCGGCTCATGCCTTCCTTCTTTGGCATGGCGTTCTGCCTGATGTAGAACCGGTCATcaa > 1:822295/1‑68 (MQ=255)
gtggCACAAGCGGCTCATGCCTTCCTTCTTTGGCATGGCGTTCTGCCTGATGTAGAACCGGTCATcaa > 1:1015705/1‑68 (MQ=255)
gtggCACAAGCGGCTCATGCCTTCCTTCTTTGGCATGGCGTTCTGCCTGATGTAGAACCGGTCATcaa > 1:1177823/1‑68 (MQ=255)
gtggCACAAGCGGCTCATGCCTTCCTTCTTTGGCATGGCGTTCTGCCTGATGTAGAACCGGTCATcaa > 1:3062305/1‑68 (MQ=255)
gtggCACAAGCGGCTCATGCCTTCCTTCTTTGGCATGGCGTTCTGCCTGATGTAGAACCGGTCATcaa > 1:2989751/1‑68 (MQ=255)
gtggCACAAGCGGCTCATGCCTTCCTTCTTTGGCATGGCGTTCTGCCTGATGTAGAACCGGTCATcaa > 1:1011023/1‑68 (MQ=255)
gtggCACAAGCGGCTCATGCCTTCCTTCTTTGGCATGGCGTTCTGCCTGATGTAGAACCGGTCATcaa > 1:1292368/1‑68 (MQ=255)
gtggCACAAGCGGCTCATGCCTTCCTTCTTTGGCATGGCGTTCTGCCTGATGTAGAACCGGTCATcaa > 1:2178295/1‑68 (MQ=255)
gtggCACAAGCGGCTCATGCCTTCCTTCTTTGGCATGGCGTTCTGCCTGATGTAGAACCGGTCATcaa > 1:2082810/1‑68 (MQ=255)
gtggCACAAGCGGCTCATGCCTTCCTTCTTTGGCATGGCGTTCTGCCTGATGTAGAACCGGTCATcaa > 1:1632540/1‑68 (MQ=255)
ggCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGGTGTTCTGCCTGACGTAGAACCAGTTATAAAGCa > 1:1134705/1‑69 (MQ=255)
ggCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGGTGTTCTGCCTGACGTAGAACCAGTTATAAAGCa < 1:1283957/69‑1 (MQ=255)
ggCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGGTGTTCTGCCTGACGTAGAACCAGTTATAAAGCa < 1:271974/69‑1 (MQ=255)
ggCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGGTGTTCTGCCTGACGTAGAACCAGTTATAAAGCa > 1:578492/1‑69 (MQ=255)
ggCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGGTGTTCTGCCTGACGTAGAACCAGTTATAAAGCa > 1:2191845/1‑69 (MQ=255)
ggCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGGTGTTCTGCCTGACGTAGAACCAGTTATAAAGCa < 1:1429927/69‑1 (MQ=255)
ggCACAGGCGGCTCATGCCTTTCTTCTATGGCACGGTGTTCTGCCTGACGTAGAACCAGTTATAAAGCa < 1:2806834/69‑1 (MQ=255)
ggcggcTCATGCCTTTCTTCTCTGGCACGGTGTTCTGCCTGACGTAGAACCAGTTATAAAGCAATTGc > 1:360531/1‑68 (MQ=255)
|
GTGTGAGCAGCGAGGCTCAAAGCGTAATGCTGATGGTTTAGGAATGCTGGTGGCACAGGCGGCTCATGCCTTTCTTCTCTGGCACGGTGTTCTGCCTGACGTAGAACCAGTTATAAAGCAATTGC > minE/2761861‑2761985
|
| 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
