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 F8 I0 R1
|
82 |
77.9 |
2158605 |
86.8% |
1873669 |
62.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,858,845 |
G→A |
100% |
S373S (TCG→TCA) |
amiB → |
N‑acetylmuramoyl‑l‑alanine amidase II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,858,845 | 0 | G | A | 100.0%
| 164.6
/ NA
| 52 | S373S (TCG→TCA) | amiB | N‑acetylmuramoyl‑l‑alanine amidase II |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (45/7); total (45/7) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTT > minE/2858794‑2858881
|
cGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATc < 1:1115413/66‑1 (MQ=255)
cGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATc < 1:927571/66‑1 (MQ=255)
cGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATc < 1:1835370/66‑1 (MQ=255)
ccAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGt < 1:1891372/66‑1 (MQ=255)
ccAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGt < 1:1506016/66‑1 (MQ=255)
ccAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGt < 1:1470841/66‑1 (MQ=255)
ccAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGt < 1:616423/66‑1 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATTCCATCAGTACTGGTCGAAACCGGtttt > 1:1264448/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACt > 1:133624/1‑50 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAAc > 1:2112085/1‑59 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:56446/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:2027091/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1986198/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1949954/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1918623/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:2060955/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:212933/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:345470/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:366508/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:476035/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:479846/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:498826/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1855568/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:622575/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:687887/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:72062/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:739979/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:957114/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:990780/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1583238/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1014689/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1104932/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1138199/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1159601/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1212855/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1327944/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1337423/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1377116/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1518522/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:156059/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1573150/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1865952/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:160266/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1615956/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:167438/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1722265/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1797612/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1834828/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1836002/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGtttt > 1:1014114/1‑66 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGttt > 1:192778/1‑65 (MQ=255)
gAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGCTCGAAACCGGtttt > 1:471141/1‑66 (MQ=255)
|
CGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTT > minE/2858794‑2858881
|
| 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
