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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
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%
| 198.4
/ NA
| 49 | intergenic (‑6/+300) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (21/28); total (21/28) |
| 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%
| 198.4
/ NA
| 49 | intergenic (‑7/+299) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (21/28); total (21/28) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
ACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGAAAAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGTTTAA > W3110S.gb/4371208‑4371337
||
aCGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGaaatag > 1:1554636/1‑68 (MQ=255)
agcagcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGa < 1:335616/70‑1 (MQ=255)
agcagcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGAt < 1:3062983/71‑1 (MQ=255)
agcagcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGAt < 1:267696/71‑1 (MQ=255)
gcagcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGAt > 1:2396452/1‑70 (MQ=255)
gcagcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATa < 1:2155006/71‑1 (MQ=255)
gcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAAcc > 1:325983/1‑71 (MQ=255)
cTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCg > 1:3170690/1‑71 (MQ=255)
tttCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGc > 1:285449/1‑70 (MQ=255)
tttCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGc > 1:2563082/1‑70 (MQ=255)
tctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGAt < 1:2068031/70‑1 (MQ=255)
aaCCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATg > 1:5068729/1‑67 (MQ=255)
ccAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATgg < 1:3071474/66‑1 (MQ=255)
ccAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATgg < 1:4424000/66‑1 (MQ=255)
ccAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGAt > 1:319501/1‑70 (MQ=255)
cAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGc < 1:3891220/54‑1 (MQ=255)
aGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATTATAATGGAGATGa > 1:349482/1‑70 (MQ=255)
aGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGAt < 1:3885746/64‑1 (MQ=255)
gTCCAGACCGCCCGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATg < 1:1497501/58‑1 (MQ=255)
gTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATg < 1:3006170/58‑1 (MQ=255)
gTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGAt < 1:2291049/63‑1 (MQ=255)
gTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGa < 1:2690221/71‑1 (MQ=255)
gTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGa < 1:2975130/71‑1 (MQ=255)
gTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCCCCATGATAATGGAGAt < 1:3351433/63‑1 (MQ=255)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGAt < 1:3297854/51‑1 (MQ=255)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACg > 1:3039006/1‑71 (MQ=255)
aGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGAt < 1:357130/50‑1 (MQ=255)
aGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACgg < 1:2078213/71‑1 (MQ=255)
aCCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCa > 1:3411137/1‑44 (MQ=38)
aCCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCa > 1:4528603/1‑44 (MQ=38)
ccGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATa < 1:2774274/36‑1 (MQ=37)
ccGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGAt < 1:109542/71‑1 (MQ=255)
cGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGgag > 1:364212/1‑53 (MQ=38)
cGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGgag > 1:479890/1‑53 (MQ=38)
ccAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGtt < 1:882595/71‑1 (MQ=255)
ccAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGt > 1:459131/1‑70 (MQ=255)
cAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATgg > 1:3151347/1‑45 (MQ=37)
cAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa > 1:4030511/1‑51 (MQ=38)
aaCCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGAt > 1:2717002/1‑48 (MQ=38)
ccTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACgg < 1:3285163/58‑1 (MQ=39)
ccTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGt > 1:3201271/1‑71 (MQ=255)
cTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGtt > 1:2104729/1‑71 (MQ=255)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa > 1:4303592/1‑46 (MQ=38)
gCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt > 1:1723876/1‑70 (MQ=255)
cATGGCAG‑‑AAATAGCGGCTATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt < 1:2016522/69‑1 (MQ=255)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATgg < 1:4905500/38‑1 (MQ=25)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt < 1:2822694/69‑1 (MQ=255)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt < 1:2295323/69‑1 (MQ=255)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt < 1:4724929/69‑1 (MQ=255)
cATGGCAG‑‑AAATAGCGGCGATAACC‑CCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGTTTaa < 1:2329135/70‑1 (MQ=255)
||
ACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGAAAAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGTTTAA > W3110S.gb/4371208‑4371337
|
| 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
