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 |
1,195,442 |
T→C |
40.0% |
L570L (CTA→CTG) |
yoaA ← |
conserved hypothetical protein with nucleoside triphosphate hydrolase domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,195,442 | 0 | T | C | 40.0%
| 27.8
/ 47.4
| 70 | L570L (CTA→CTG) | yoaA | conserved hypothetical protein with nucleoside triphosphate hydrolase domain |
| Reads supporting (aligned to +/- strand): ref base T (23/19); new base C (13/15); total (36/34) |
| Fisher's exact test for biased strand distribution p-value = 6.26e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.42e-01 |
ACGATCGTCGGCGTCGCGAATCAGTCGCCCTACCCCCTGTTTGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTCCATGCGCGCTTTTAACAG > minE/1195379‑1195507
|
aCGATCGTCGGCGTCGCGAATCAGTCGCCCTACCCCCTGTTTGAGAGTAATGACGGCATCTGGTAGTTg < 1:1872893/69‑1 (MQ=255)
cgtcgGCGTCGCGAATCAGTCGCCCTACCCCCTGTTTGAGAGTAATGACGGCATCTGGTAGTTGCACtt < 1:1028066/69‑1 (MQ=255)
cgtcgGCGTCGCGAATCAGTCGCCCTACCCCCTGTTTGAGAGTAATGACGGCATCTGGTAGTTGCACtt < 1:2419128/69‑1 (MQ=255)
cgtcgGCGTCGCGAATCAGTCGCCCTACCCCCTGTTTGAGAGTAATGACGGCATCTGGTAGTTGCACtt < 1:1079845/69‑1 (MQ=255)
gcgAATCAGTCGCCCTACCCCCTGTTTGAGAGTAATGACGGCATCTGGTAGTTGCACTTCa > 1:1156197/1‑61 (MQ=255)
gcgAATCAGTCGCCCTACCCCCTGTTTGAGAGTAATGACGGCATCTGGTAGTTGCACTTCCTCGCACgg > 1:2063533/1‑69 (MQ=255)
gcgAATCAGTCGCCCTACCCCCTGTTTGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACgg > 1:971574/1‑69 (MQ=255)
gcgAATCAGTCGCCCTACCCCCTGTTTGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACgg > 1:167126/1‑69 (MQ=255)
gcgAATCAGTCGCCCTACCCCCTGTTTGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACgg > 1:2330523/1‑69 (MQ=255)
gcgAATCAGTCGCCCTACCCCCTGTTTGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACgg > 1:2945335/1‑69 (MQ=255)
gcgAATCAGTCGCCCTACCCCCTGTTTGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACgg > 1:3149768/1‑69 (MQ=255)
gAATCAATCGCCCTACCCCCTGCTTGAGAGTAATGACCGCATCCGGCAGTTGTACTTCATCGAACgga < 1:2927747/68‑2 (MQ=255)
gAATCAATCGCCCTACCCCCTGCTTGAGAGTAATGACCGCATCCGGCAGTTGTACTTCATCGAACgga < 1:2795261/68‑2 (MQ=255)
gAATCAATCGCCCTACCCCCTGCTTGAGAGTAATGACCGCATCCGGCAGTTGTACTTCATCGAACgga < 1:273599/68‑2 (MQ=255)
gAATCAATCGCCCTACCCCCTGCTTGAGAGTAATGACCGCATCCGGCAGTTGTACTTCATCGAACgga < 1:2719335/68‑2 (MQ=255)
gAATCAATCGCCCTACCCCCTGCTTGAGAGTAATGACCGCATCCGGCAGTTGTACTTCATCGAACgga < 1:2511617/68‑2 (MQ=255)
gAATCAATCGCCCTACCCCCTGCTTGAGAGTAATGACCGCATCCGGCAGTTGTACTTCATCGAACgga < 1:1081096/68‑2 (MQ=255)
gAATCAATCGCCCTACCCCCTGCTTGAGAGTAATGACCGCATCCGGCAGTTGTACTTCATCGAACgga < 1:2063211/68‑2 (MQ=255)
gAATCAATCGCCCTACCCCCTGCTTGAGAGTAATGACCGCATCCGGCAGTTGTACTTCATCGAACgga < 1:1954520/68‑2 (MQ=255)
gAATCAATCGCCCTACCCCCTGCTTGAGAGTAATGACCGCATCCGGCAGTTGTACTTCATCGAACgga < 1:3177260/68‑2 (MQ=255)
gAATCAATCGCCCTACCCCCTGCTTGAGAGTAATGACCGCATCCGGCAGTTGTACTTCATCGAACgga < 1:2442992/68‑2 (MQ=255)
gAATCAATCGCCCTACCCCCTGCTTGAGAGTAATGACCGCATCCGGCAGTTGTACTTCATCGAACgga < 1:1279117/68‑2 (MQ=255)
gAATCAATCGCCCTACCCCCTGCTTGAGAGTAATGACCGCATCCGGCAGTTGTACTTCATCGAACgga < 1:1521142/68‑2 (MQ=255)
gAATCAATCGCCCTACCCCCTGCTTGAGAGTAATGACCGCATCCGGCAGTTGTACTTCATCGAACgga < 1:1559398/68‑2 (MQ=255)
aatcaatcGCCCTACCCCCTGCTTGAGAGTAATGACCGCATCCGGCAGTTGTACTTCATCGAACgga < 1:1550896/67‑2 (MQ=255)
cttGAGAGTAATGACCGCATCCGGCAGTTGTACTTCATCGAACgga < 1:2088320/45‑2 (MQ=25)
tGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCt > 1:3281235/1‑68 (MQ=255)
tGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCt > 1:2753097/1‑68 (MQ=255)
tGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCt > 1:1388854/1‑68 (MQ=255)
tGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCt > 1:1309215/1‑68 (MQ=255)
tGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCt > 1:2606907/1‑68 (MQ=255)
tGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCt > 1:2279381/1‑68 (MQ=255)
tGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCt > 1:2046670/1‑68 (MQ=255)
tGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCt > 1:1572431/1‑68 (MQ=255)
tGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCt > 1:3343862/1‑68 (MQ=255)
tGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCt > 1:369364/1‑68 (MQ=255)
tGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCt > 1:792803/1‑68 (MQ=255)
tGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCt > 1:1109759/1‑68 (MQ=255)
agagTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGTTCGCCACCGCGCAAACGACAATCTTc < 1:1027920/68‑1 (MQ=255)
agagTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTc < 1:1737149/68‑1 (MQ=255)
agagTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTc < 1:3299977/68‑1 (MQ=255)
agagTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTc < 1:1205203/68‑1 (MQ=255)
agagTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTc < 1:3168337/68‑1 (MQ=255)
agagTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTc < 1:1497078/68‑1 (MQ=255)
gACGGCATCTGGTAGTTGCACTTCATCTAACGGGTCGCCACCGCGCAAACGACAATCTTCCATgcgcg < 1:1240699/68‑1 (MQ=255)
gACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTCCATgcgcg < 1:592706/68‑1 (MQ=255)
gACGGCATCTGGTAGTTGCACTTCATCGAACGGGGCGCCACCGCGCAAACGACAATCTTc < 1:1649760/60‑1 (MQ=255)
gCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTCCATGCGCGCtttt < 1:2651409/69‑1 (MQ=255)
gCATCCGGCAGTTGTACTTCATCGAACGGATCACCACCGCGCAAACGGCAATCTTcc > 1:2750770/1‑57 (MQ=255)
gCATCCGGCAGTTGTACTTCATCGAACGGATCACCACCGCGCAAACGGCAATCTTCCATGCGTGCtttt > 1:1385147/1‑69 (MQ=255)
gCATCCGGCAGTTGTACTTCATCGAACGGATCACCACCGCGCAAACGGCAATCTTCCATGCGTGCtttt > 1:1766677/1‑69 (MQ=255)
gCATCCGGCAGTTGTACTTCATCGAACGGATCACCACCGCGCAAACGGCAATCTTCCATGCGTGCtttt > 1:765249/1‑69 (MQ=255)
gCATCCGGCAGTTGTACTTCATCGAACGGATCACCACCGCGCAAACGGCAATCTTCCATGCGTGCtttt > 1:646772/1‑69 (MQ=255)
gCATCCGGCAGTTGTACTTCATCGAACGGATCACCACCGCGCAAACGGCAATCTTCCATGCGTGCtttt > 1:420987/1‑69 (MQ=255)
gCATCCGGCAGTTGTACTTCATCGAACGGATCACCACCGCGCAAACGGCAATCTTCCATGCGTGCtttt > 1:371337/1‑69 (MQ=255)
gCATCCGGCAGTTGTACTTCATCGAACGGATCACCACCGCGCAAACGGCAATCTTCCATGCGTGCtttt > 1:369199/1‑69 (MQ=255)
gCATCCGGCAGTTGTACTTCATCGAACGGATCACCACCGCGCAAACGGCAATCTTCCATGCGTGCtttt > 1:3382154/1‑69 (MQ=255)
gCATCCGGCAGTTGTACTTCATCGAACGGATCACCACCGCGCAAACGGCAATCTTCCATGCGTGCtttt > 1:3059343/1‑69 (MQ=255)
gCATCCGGCAGTTGTACTTCATCGAACGGATCACCACCGCGCAAACGGCAATCTTCCATGCGTGCtttt > 1:2619957/1‑69 (MQ=255)
gCATCCGGCAGTTGTACTTCATCGAACGGATCACCACCGCGCAAACGGCAATCTTCCATGCGTGCtttt > 1:2940174/1‑69 (MQ=255)
gCATCCGGCAGTTGTACTTCATCGAACGGATCACCACCGCGCAAACGGCAATCTTCCATGCGTGCtttt > 1:1372538/1‑69 (MQ=255)
tCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTCCATGCGCGCTTTTAAc < 1:3023428/69‑1 (MQ=255)
tGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACaa > 1:297784/1‑46 (MQ=255)
tGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTc < 1:221187/51‑1 (MQ=255)
tGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTc < 1:2266175/51‑1 (MQ=255)
tGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTc < 1:3388037/51‑1 (MQ=255)
tGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTc < 1:2777270/51‑1 (MQ=255)
tGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTCCATGCGCGCTTTTAACAg > 1:1580254/1‑69 (MQ=255)
tGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTCCATGCGCGCTTTTAACAg > 1:150283/1‑69 (MQ=255)
tGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTCCATGCGCGCTTTTAACAg > 1:1848657/1‑69 (MQ=255)
|
ACGATCGTCGGCGTCGCGAATCAGTCGCCCTACCCCCTGTTTGAGAGTAATGACGGCATCTGGTAGTTGCACTTCATCGAACGGGTCGCCACCGCGCAAACGACAATCTTCCATGCGCGCTTTTAACAG > minE/1195379‑1195507
|
| 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
