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 F8 I0 R1
|
43 |
62.4 |
4721813 |
98.4% |
4646263 |
62.0 |
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%
| 190.4
/ NA
| 46 | intergenic (‑6/+300) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (22/24); total (22/24) |
| 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%
| 190.4
/ NA
| 46 | intergenic (‑7/+299) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (22/24); total (22/24) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
ACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGAAAAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGTTT > W3110S.gb/4371208‑4371335
||
aCGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGaaata < 1:1779129/70‑3 (MQ=255)
agcagcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGAt < 1:1830830/71‑1 (MQ=255)
agcagcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGAt < 1:1693382/71‑1 (MQ=255)
agcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAAc > 1:2774778/1‑71 (MQ=255)
ctgtctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCAt < 1:3788683/70‑1 (MQ=255)
tgtctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGAt < 1:2174323/60‑1 (MQ=255)
tctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGAt < 1:1231435/70‑1 (MQ=255)
tctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGAt < 1:3602938/70‑1 (MQ=255)
tctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGAt > 1:1292448/1‑70 (MQ=255)
tctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATa < 1:3399246/71‑1 (MQ=255)
tctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATa < 1:1614757/71‑1 (MQ=255)
ctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGAt < 1:1910566/69‑1 (MQ=255)
atgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATg > 1:4437516/1‑70 (MQ=255)
aaCCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATg > 1:155883/1‑67 (MQ=255)
ccAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGaaat < 1:163210/40‑2 (MQ=255)
ccAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCAt > 1:3707021/1‑58 (MQ=255)
aGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGAc < 1:630668/71‑1 (MQ=255)
tAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATc < 1:4625057/71‑1 (MQ=255)
gTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCg < 1:2037344/70‑1 (MQ=255)
tCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGcc < 1:2524307/48‑1 (MQ=38)
tCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGcc < 1:1957146/48‑1 (MQ=38)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATg > 1:3936205/1‑61 (MQ=255)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGAc > 1:3386258/1‑63 (MQ=255)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGTAc < 1:2019872/70‑1 (MQ=255)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACg > 1:2606210/1‑71 (MQ=255)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACg > 1:2726783/1‑71 (MQ=255)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACg > 1:311965/1‑71 (MQ=255)
aGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACgc < 1:929722/71‑2 (MQ=255)
aGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACg < 1:3164377/70‑1 (MQ=255)
aGACCGCAAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACgg < 1:4458679/71‑1 (MQ=255)
gACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACgg > 1:3672198/1‑70 (MQ=255)
cAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTa < 1:4102982/71‑1 (MQ=255)
aGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGAt > 1:4280328/1‑51 (MQ=38)
aGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACggg > 1:4052164/1‑64 (MQ=255)
aGCAACCCGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGAt > 1:1159337/1‑51 (MQ=37)
gCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTAcc < 1:2278204/71‑1 (MQ=255)
gCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTAcc > 1:2310151/1‑71 (MQ=255)
gCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTAcc < 1:301826/71‑1 (MQ=255)
cAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTAc > 1:2480208/1‑69 (MQ=255)
aaCCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATg > 1:2323986/1‑43 (MQ=37)
aCCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTa < 1:4706544/66‑1 (MQ=255)
aCCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCggg > 1:4703904/1‑71 (MQ=255)
ccTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGGTGACATCGAACGGGATGTTAcc > 1:2047713/1‑67 (MQ=255)
gCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGgaga > 1:730307/1‑42 (MQ=37)
gCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt > 1:4447098/1‑70 (MQ=255)
gCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt > 1:3044780/1‑70 (MQ=255)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt < 1:2222589/69‑1 (MQ=255)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt < 1:920405/69‑1 (MQ=255)
||
ACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGAAAAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGTTT > W3110S.gb/4371208‑4371335
|
| 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
