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 |
2,855,732 |
G→A |
13.1% |
intergenic (‑270/‑17) |
ygbA ← / → mutS |
hypothetical protein/methyl‑directed mismatch repair protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,855,732 | 0 | G | A | 13.1%
| 145.3
/ 11.2
| 54 | intergenic (‑270/‑17) | ygbA/mutS | hypothetical protein/methyl‑directed mismatch repair protein |
| Reads supporting (aligned to +/- strand): ref base G (17/29); new base A (4/3); total (21/33) |
| Fisher's exact test for biased strand distribution p-value = 4.15e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.89e-01 |
TATCATGTGCGCCTTATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTATCTC > W3110S.gb/2855668‑2855802
|
tATCATGTGCGCCTTATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGTAACCgg < 1:9062/71‑1 (MQ=255)
tATCATGTGCGCCTTATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCgg < 1:2189242/71‑1 (MQ=255)
tCATGTGCGCCTTATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGa < 1:1337240/70‑1 (MQ=255)
tCATGTGCGCCTTATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGa < 1:3889494/70‑1 (MQ=255)
tCATGTGCGCCTTATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGa < 1:1935422/70‑1 (MQ=255)
tCATGTGCGCCTTATGTGATTACAACCAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGa < 1:4637267/70‑1 (MQ=255)
aTGTGCGCCTTATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGAc > 1:1746979/1‑69 (MQ=255)
aTGTGCGCCTTATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACa > 1:5106685/1‑70 (MQ=255)
aTGTGCGCCTTATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACa > 1:3919250/1‑70 (MQ=255)
aTGTGCGCCTTATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACAt < 1:1072738/71‑1 (MQ=255)
gcCTTATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAAcccc < 1:2470756/71‑1 (MQ=255)
cTTATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCAt < 1:95789/71‑1 (MQ=255)
ttATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGa < 1:5076217/53‑1 (MQ=255)
aTGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGaa > 1:2851972/1‑52 (MQ=255)
aTGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATg < 1:3557281/69‑1 (MQ=255)
aTGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAg > 1:1965695/1‑71 (MQ=255)
aCAACTAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCaa > 1:4070476/1‑68 (MQ=255)
aCAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCaa > 1:4079594/1‑68 (MQ=255)
aCAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCaa > 1:1512268/1‑68 (MQ=255)
cAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAg < 1:4323522/70‑1 (MQ=255)
cAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGa < 1:1109101/71‑1 (MQ=255)
aaCGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGAc < 1:3140541/48‑1 (MQ=255)
aaCGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGaa < 1:257582/71‑1 (MQ=255)
aaCGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGaa < 1:1948917/71‑1 (MQ=255)
aaaaTAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGC‑ATAGAAAAttt > 1:584102/1‑71 (MQ=255)
aaTAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTc < 1:3945470/71‑1 (MQ=255)
aTAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATaa > 1:5094849/1‑45 (MQ=255)
aaaCCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGacgc < 1:4336931/71‑1 (MQ=255)
aCCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGa > 1:1392546/1‑66 (MQ=255)
ccATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGacgccca < 1:4721304/71‑1 (MQ=255)
tCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCaa < 1:2908267/49‑1 (MQ=255)
tCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCaa < 1:382216/49‑1 (MQ=255)
tCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGacgcc < 1:1587774/66‑1 (MQ=255)
acacCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGacgcccata < 1:5018441/68‑1 (MQ=255)
cacCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAAt > 1:888996/1‑54 (MQ=255)
cacCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGacgcccatacgcc < 1:1635658/71‑1 (MQ=255)
cacCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGacgcccat > 1:3563832/1‑66 (MQ=255)
cacCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGacgccca > 1:1798739/1‑65 (MQ=255)
taattTAATATCAGTAAACCGGACATAACCCatgaagaaaaatcgcgcttttttgaagtgggca < 1:85384‑M1/62‑34 (MQ=255)
aTTTAATATCAGGGAACCGGACATAACCCCATGAGTGc < 1:3489432/38‑1 (MQ=255)
tttAATATCAGTAAACCGGACATAACCCatgaagaaaaatcgcgcttttttgaagtgggcagggggcaagt < 1:2030762‑M1/71‑44 (MQ=255)
tttAATATCAGTAAACCGGACATAACCCatgaagaaaaa > 1:3642286‑M1/1‑28 (MQ=255)
tttAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTc < 1:3207574/50‑1 (MQ=255)
tttAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTc < 1:3213705/50‑1 (MQ=255)
tttAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGacgcccatacgcc < 1:4001933/64‑1 (MQ=255)
tttAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCatgat < 1:1546536/70‑1 (MQ=255)
ttAATATCAGTAAACCGGACATAACCCatgaagaaaaatcgcgcttttttgaagtgggcagggggcaagta > 1:1119572‑M1/1‑27 (MQ=255)
tAATATCAGTAAACCGGACATAACCCatgaagaaaaatcgcgcttttttgaagtgggcagggggcaagtat > 1:4048855‑M1/1‑26 (MQ=255)
tAATATCAGTAAACCGGACATAACCCatgaagaaaaatcgcgcttttttgaagtgggcagggggcaagtat > 1:2371928‑M1/1‑26 (MQ=255)
tAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCatga > 1:1636736/1‑67 (MQ=255)
aaTATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAAt > 1:4122962/1‑44 (MQ=255)
aaTATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATgca < 1:4417024/70‑1 (MQ=255)
atatCAGTAAACCGGACATAACCCatgaagaaaaatcgcgcttttttgaagtgggcagggggcaagtatc < 1:1480321‑M1/70‑47 (MQ=255)
cAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTa > 1:3843244/1‑71 (MQ=255)
gAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGacgcccatacgccca > 1:1146162/1‑54 (MQ=255)
gAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTAtctc < 1:880781/71‑1 (MQ=255)
|
TATCATGTGCGCCTTATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTATCTC > W3110S.gb/2855668‑2855802
|
| 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
