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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,507,250 |
A→G |
25.6% |
I182T (ATC→ACC) |
ydcO ← |
predicted benzoate transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,507,250 | 0 | A | G | 25.6%
| 62.3
/ 24.4
| 39 | I182T (ATC→ACC) | ydcO | predicted benzoate transporter |
| Reads supporting (aligned to +/- strand): ref base A (16/13); new base G (4/6); total (20/19) |
| Fisher's exact test for biased strand distribution p-value = 4.80e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.32e-01 |
TCAGGGGTAATATAAGTGGGGAGAACGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAATTACCGCATAGCGCGGCGCAACGGCCTTGGTTGC > W3110S.gb/1507181‑1507317
|
tCAGGGGTAATATAAGTGGGGAGAACGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGAt < 1:507520/71‑1 (MQ=255)
ggTAATATAAGTGGGGAGAACGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGGTGacg < 1:2641677/70‑1 (MQ=255)
tAATATAAGTGGGGAGAACGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGATGacg < 1:434652/68‑1 (MQ=255)
atatAAGTGGGGAGAACGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGGTGacgatcac > 1:716022/1‑71 (MQ=255)
atatAAGTGGGGAGAACGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGGTGacgatcac > 1:169674/1‑71 (MQ=255)
atatAAGTGGGGAGAACGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGATGacgatcac > 1:2753207/1‑71 (MQ=255)
atatAAGTGGGGAGAACGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGATGacgat > 1:2138628/1‑68 (MQ=255)
ataAGTGGGGAGAACGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGa > 1:1319462/1‑59 (MQ=255)
taAGTGGGGAGAATGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGATGacgatcacgat > 1:2051364/1‑71 (MQ=255)
taAGTGGGGAGAACGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGGTGac > 1:1799487/1‑62 (MQ=255)
taAGTGGGGAGAACGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGATGacgatcacgat > 1:1083891/1‑71 (MQ=255)
gaACGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGATGACGATCACGATCCCAATAatc < 1:2102549/71‑1 (MQ=255)
gaACGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGATGACGATCACGATCCCAATAatc < 1:1429170/71‑1 (MQ=255)
aCGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGATGACGATCACGATCCCAATAatca > 1:1068853/1‑70 (MQ=255)
aaaGACAACATCAGTTGTGACAACGTCACCTTGCGCGGTGACGATCACGATCCCAATAATCATCGCGGCa < 1:862139/70‑1 (MQ=255)
aaaGACAACATCAGTTGTGACAACGTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCa < 1:456749/70‑1 (MQ=255)
aaGACAACATCAGTTGTGACAACGTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAAt < 1:1910/71‑1 (MQ=255)
acaacaTCAGTTGTGACAACGTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAATTAc > 1:203180/1‑71 (MQ=255)
aacaTCAGTTGTGACAACGTCACCTTGCGCGGTGACGATCACGATCCCAATAATCATCGCGGCAATTACCg < 1:1137900/71‑1 (MQ=255)
aacaTCAGTTGTGACAACGTCACCTTGCGCGGTGACGATCACGATCCCAATAATCATCGCGGCAATTACCg < 1:995827/71‑1 (MQ=255)
aacaTCAGTTGTGACAACGTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAATTACCg < 1:1914504/71‑1 (MQ=255)
aTCAGTTGTGACAACGTCACCTTGCGCGATGacgatcacga > 1:1436501/1‑41 (MQ=255)
aTCAGTTGTGACAACGTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAATTACCGCa > 1:1018110/1‑70 (MQ=255)
aTCAGTTGTGACAACGTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAATTACCGCa > 1:2785465/1‑70 (MQ=255)
aGTTGTGACAACGTCACCTTGCGCGGTGACGATCACGATCCCAATAATCATCGCGGCAATTACCGCATAgc > 1:1049798/1‑71 (MQ=255)
ttGTGACAACGTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAATTACCGc < 1:1185977/64‑1 (MQ=255)
tgtgACAACGTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAAt < 1:1765829/57‑1 (MQ=255)
aCAACGTCACCTTGCGCGATGACGATCACGATCCCAATACTCATCGCGGCAATTa > 1:2628973/1‑55 (MQ=255)
aCAACGTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAATTa > 1:690235/1‑55 (MQ=255)
cAACGTCACCTTGCGCGGTGACGATCACGATCCCAATAATCATCGCGGCAATTACCGCATAGCGCGGCGCa < 1:1376169/71‑1 (MQ=255)
cAACGTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAATTACCGCATAGCGCGGCGCa < 1:1380921/71‑1 (MQ=255)
aaCGTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAATTa > 1:1785136/1‑53 (MQ=255)
aaCGTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAATTa > 1:847455/1‑53 (MQ=255)
aaCGTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAATTAc > 1:1526/1‑54 (MQ=255)
aaCGTCACCTTGCGCGATGACGATAACGATCCCAATAATCATCGCGGCAATTAc > 1:1392715/1‑54 (MQ=255)
gTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAATTACCGCATAGCGCGGCGCAACgg < 1:1266169/71‑1 (MQ=255)
aCCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAATTACCGCATAGCGCGGCGCAACGGCCt < 1:879669/71‑1 (MQ=255)
tGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAATTACCGCATAGCGCGGCGCAACGGCCTTGGt > 1:2479661/1‑71 (MQ=255)
cgcgATGACGATCACGATCCCAATAATCATCGCGGCAATTACCGCATAGCGCGGCGCAACGGCCTTGGTTg < 1:2512304/71‑1 (MQ=255)
gcgGTGACGATCACGATCCCAATAATCATCGCGGCAATTACCGCATAGCGCGGCGCAACGGCCTTGGTTgc < 1:418573/71‑1 (MQ=255)
aTGACGATCACGATCCCAATAATAATCGCGGCAATTACCGCATAGCGCGGCGCAACGGCCTTGGTTgc > 1:15125/1‑68 (MQ=255)
|
TCAGGGGTAATATAAGTGGGGAGAACGGGTTTAAAGACAACATCAGTTGTGACAACGTCACCTTGCGCGATGACGATCACGATCCCAATAATCATCGCGGCAATTACCGCATAGCGCGGCGCAACGGCCTTGGTTGC > W3110S.gb/1507181‑1507317
|
| 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
