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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
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%
| 205.1
/ NA
| 51 | intergenic (‑6/+300) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (22/29); total (22/29) |
| 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%
| 205.1
/ NA
| 51 | intergenic (‑7/+299) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (22/29); total (22/29) |
| 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 < 1:680701/71‑1 (MQ=255)
ggTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGa < 1:3197406/70‑1 (MQ=255)
ttACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGaaa > 1:1113466/1‑70 (MQ=255)
ttACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGaaa > 1:4036191/1‑70 (MQ=255)
gcagcTTTTCTGTCTGATGAACCAGATAGTCCAGAGCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATa < 1:2061459/71‑1 (MQ=255)
agcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGa < 1:2872718/56‑1 (MQ=255)
tctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGa < 1:303328/69‑1 (MQ=255)
tctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATa < 1:1251241/71‑1 (MQ=255)
ctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATaa > 1:2458560/1‑71 (MQ=255)
tgatgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGAt < 1:186493/56‑1 (MQ=255)
tgatgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAAt > 1:1327129/1‑71 (MQ=255)
atgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAAc > 1:771956/1‑57 (MQ=255)
tgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGga < 1:1656916/71‑1 (MQ=255)
gaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGAt < 1:1038719/52‑1 (MQ=255)
aaCCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGgaga < 1:2753393/71‑1 (MQ=255)
aCCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGAt < 1:124041/71‑1 (MQ=255)
ccAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGAt > 1:692350/1‑70 (MQ=255)
gATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAAc > 1:3859071/1‑49 (MQ=38)
aTAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGAt < 1:2369918/45‑1 (MQ=255)
aTAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGAt < 1:505513/57‑1 (MQ=255)
aTAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGga < 1:4413904/63‑1 (MQ=255)
tAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGgaga > 1:2680935/1‑64 (MQ=255)
aGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATa > 1:4622738/1‑56 (MQ=255)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGAt > 1:2038548/1‑39 (MQ=37)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATaa > 1:2377946/1‑53 (MQ=255)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATaa > 1:502700/1‑53 (MQ=255)
aGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAActg < 1:3015287/71‑3 (MQ=255)
aGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACgg < 1:1784111/71‑1 (MQ=255)
aGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACgg < 1:1905081/71‑1 (MQ=255)
aGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACgg < 1:3312766/71‑1 (MQ=255)
gACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATaa < 1:4145987/51‑1 (MQ=255)
aCCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGa > 1:937491/1‑71 (MQ=255)
aCCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGa < 1:1614978/71‑1 (MQ=255)
aCCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGa > 1:2929928/1‑71 (MQ=255)
ccGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGAt < 1:4107439/71‑1 (MQ=255)
ccGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGAt < 1:2211358/71‑1 (MQ=255)
ccGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGAt < 1:4112831/71‑1 (MQ=255)
cGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa < 1:4602499/57‑1 (MQ=38)
ccAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGga < 1:869196/50‑1 (MQ=38)
ccAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGt > 1:2129914/1‑70 (MQ=255)
cAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTa < 1:3895340/71‑1 (MQ=255)
gCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATg > 1:4228062/1‑66 (MQ=255)
gCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGt > 1:3266929/1‑67 (MQ=255)
aaCCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGa > 1:838764/1‑62 (MQ=255)
aaCCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCgg > 1:1733046/1‑71 (MQ=255)
aCCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGaa < 1:3460226/56‑1 (MQ=38)
ccTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa < 1:250182/48‑1 (MQ=37)
ccTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGt > 1:3705273/1‑71 (MQ=255)
cTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa > 1:2279738/1‑47 (MQ=37)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa > 1:3712362/1‑46 (MQ=37)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa > 1:2677965/1‑46 (MQ=37)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACAta < 1:1929909/50‑2 (MQ=38)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGtt > 1:2527878/1‑70 (MQ=255)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt < 1:3096910/69‑1 (MQ=255)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt < 1:3731315/69‑1 (MQ=255)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt < 1:2835072/69‑1 (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
