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 |
|
A1 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,371,273 |
Δ2 bp |
100% |
intergenic (‑6/+299) |
dcuA ← / ← aspA |
C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,371,273 | 0 | A | . | 100.0%
| 102.2
/ NA
| 28 | intergenic (‑6/+300) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (8/20); total (8/20) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
| * | W3110S.gb | 4,371,274 | 0 | A | . | 100.0%
| 102.2
/ NA
| 28 | intergenic (‑7/+299) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (8/20); total (8/20) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GGGTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGAAAAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGTTT > W3110S.gb/4371203‑4371335
||
gggTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGa < 1:2278304/71‑1 (MQ=255)
ggTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGa < 1:680389/70‑1 (MQ=255)
ttACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGaaa > 1:3320143/1‑70 (MQ=255)
gcagcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATa < 1:2005504/71‑1 (MQ=255)
cTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATa < 1:1806141/67‑1 (MQ=255)
tgtctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGAt < 1:1147494/60‑1 (MQ=255)
tctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGAt < 1:1117866/70‑1 (MQ=255)
tgatgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATaa > 1:689006/1‑70 (MQ=255)
atgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATaa < 1:817202/68‑1 (MQ=255)
atgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATaa < 1:1319341/68‑1 (MQ=255)
atgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATaa < 1:1793789/68‑1 (MQ=255)
gaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATg > 1:1641961/1‑68 (MQ=255)
aCCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGAt < 1:3420777/71‑1 (MQ=255)
cAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa < 1:3530023/71‑1 (MQ=255)
ccAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGtt < 1:984979/71‑1 (MQ=255)
ccAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGtt < 1:2525080/71‑1 (MQ=255)
aGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGc < 1:2429257/36‑1 (MQ=25)
aGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGc < 1:3665886/36‑1 (MQ=25)
cAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCa > 1:2913330/1‑36 (MQ=25)
cAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCa > 1:1478502/1‑36 (MQ=25)
cAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCa > 1:1443148/1‑36 (MQ=25)
cAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCa > 1:119272/1‑36 (MQ=25)
aaCCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGga > 1:1600595/1‑45 (MQ=38)
aaCCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGga > 1:433719/1‑45 (MQ=38)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa < 1:3195189/46‑1 (MQ=37)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa < 1:3634528/46‑1 (MQ=37)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa < 1:544380/46‑1 (MQ=37)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa < 1:1013954/46‑1 (MQ=37)
gCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa < 1:2294721/45‑1 (MQ=37)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt < 1:2244089/69‑1 (MQ=255)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt < 1:1498940/69‑1 (MQ=255)
||
GGGTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGAAAAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGTTT > W3110S.gb/4371203‑4371335
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
