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 |
666,009 |
C→T |
36.3% |
N489N (AAC→AAT) |
ycbY → |
predicted methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 666,009 | 0 | C | T | 36.3%
| 35.1
/ 29.9
| 55 | N489N (AAC→AAT) | ycbY | predicted methyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (23/12); new base T (8/12); total (31/24) |
| Fisher's exact test for biased strand distribution p-value = 9.14e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-01 |
TCGGTACTGGGGATTGCGCCAAACAAACTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAGTTTCTTGAAGTTACCGAATATAACGCTCACTTGTG > minE/665944‑666074
|
tCGGTACTGGGGATTGCGCCAAACAAACTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCaa > 1:2351498/1‑69 (MQ=255)
ggggATTGCGCCAAACCAACTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGaa > 1:3081614/1‑69 (MQ=255)
gggATTGCGCCAAACAAACTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGaaa > 1:1057641/1‑69 (MQ=255)
gggATTGCGCCAAACAAACTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGaaa > 1:1116678/1‑69 (MQ=255)
gggATTGCGCCAAACAAACTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGaaa > 1:676706/1‑69 (MQ=255)
gggATTGCGCCAAACAAACTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGaaa > 1:3248649/1‑69 (MQ=255)
gggATTGCGCCAAACAAACTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGaaa > 1:271542/1‑69 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCATAAACCAATACCAGAAACTGGGCgag < 1:1388151/64‑1 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGAAACt < 1:2394194/57‑1 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGAAACt < 1:698880/57‑1 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGAAACt < 1:2857786/57‑1 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGAAACt < 1:2794798/57‑1 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGAAACt < 1:275337/57‑1 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGAAACt < 1:2661191/57‑1 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGAAACt < 1:2624317/57‑1 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGAAACt < 1:2254052/57‑1 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGAAACt < 1:1750830/57‑1 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGAAACt < 1:1583891/57‑1 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGAAACt < 1:1276321/57‑1 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATAc > 1:3008751/1‑49 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCgag < 1:715736/64‑1 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCgag < 1:650899/64‑1 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCgag < 1:1496804/64‑1 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAgg > 1:1400185/1‑68 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAgg > 1:2828095/1‑68 (MQ=255)
caaacTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAgg > 1:1457084/1‑68 (MQ=255)
cTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAg > 1:125201/1‑69 (MQ=255)
cTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAg > 1:389034/1‑69 (MQ=255)
cTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAg > 1:1370176/1‑69 (MQ=255)
cTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAg > 1:3121879/1‑69 (MQ=255)
cTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAg > 1:2962307/1‑69 (MQ=255)
cTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAg > 1:2625293/1‑69 (MQ=255)
cTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAg > 1:1758300/1‑69 (MQ=255)
cTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAg > 1:258422/1‑69 (MQ=255)
cTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAg > 1:2573042/1‑69 (MQ=255)
cTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAg > 1:1908241/1‑69 (MQ=255)
cTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAg > 1:2124716/1‑69 (MQ=255)
cTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAg > 1:2322741/1‑69 (MQ=255)
tGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAATCAATACCAGAAACt < 1:3079042/52‑1 (MQ=255)
ggTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAGtt < 1:165083/69‑1 (MQ=255)
ggTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAGtt < 1:3333229/69‑1 (MQ=255)
aaCGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAGTTTCTTGAAGTTACCg < 1:21376/66‑1 (MQ=255)
aaCGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAGTTTCTTGAAGTTACCGaa > 1:148974/1‑68 (MQ=255)
aaCGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAGTTTCTTGAAGTTACCGaa > 1:2458317/1‑68 (MQ=255)
aaCGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAGTTTCTTGAAGTTACCGaa > 1:142890/1‑68 (MQ=255)
ccAGAAGGGCAAAAATCAATACCAGAAACTGGGCGAGAAGGGCGAGTTTCTGGaa > 1:1538493/1‑55 (MQ=255)
ccAGAAGGGCAAAAATCAATACCAGAAACTGGGCGAGAAGGGCGAGTTTCTGGAAGTTACCGAAtata > 1:633504/1‑68 (MQ=255)
ccAGAAGGGCAAAAATCAATACCAGAAACTGGGCGAGAAGGGCGAGTTTCTGGAAGTTACCGAATATaa > 1:1832428/1‑69 (MQ=255)
ggCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAGTTTCTTGAAGTTACCGAATATAACGCTCAc < 1:1055511/69‑1 (MQ=255)
cAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAGTTTCTTGAAGTTACCGAATATAACGCTCACtt > 1:2922856/1‑69 (MQ=255)
cAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAGTTTCTTGAAGTTACCGAATATAACGCTCACtt > 1:1817717/1‑69 (MQ=255)
aaaCCAATACCAGAAACTGGGCGAGAAGGGCGAGtt < 1:2298132/36‑1 (MQ=255)
aaaCCAATACCAGAAACTGGGCGAGAAGGGCGAGTTTCTTGAAGTTACCGAATATAACGCTCACTtgtg < 1:1685942/69‑1 (MQ=255)
aaaCCAATACCAGAAACTGGGCGAGAAGGGCGAGTTTCTTGAAGTTACCGAATATAACGCTCACTtgtg < 1:2518083/69‑1 (MQ=255)
aaCCAATACCAGAAACTGGGCGAGAAGGGCGAGTTTCTTGAAGTTACCGAATATAACGCTCACTtgtg < 1:82880/68‑1 (MQ=255)
|
TCGGTACTGGGGATTGCGCCAAACAAACTGGTGCTGAAAACCCGTGAACGCCAGAAGGGCAAAAACCAATACCAGAAACTGGGCGAGAAGGGCGAGTTTCTTGAAGTTACCGAATATAACGCTCACTTGTG > minE/665944‑666074
|
| 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
