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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,179,239 |
C→T |
16.2% |
L55L (CTG→TTG) |
ygiC → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,179,239 | 0 | C | T | 16.2%
| 171.6
/ 23.0
| 68 | L55L (CTG→TTG) | ygiC | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (30/27); new base T (6/5); total (36/32) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.68e-01 |
CTGGTGTGAAGATGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCTGATGAC > W3110S.gb/3179169‑3179297
|
cTGGTGTGAAGATGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAAc > 1:3813477/1‑71 (MQ=255)
cTGGTGTGAAGATGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAAc > 1:841772/1‑71 (MQ=255)
gtgtGAAGATGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTg > 1:2749436/1‑70 (MQ=255)
aaGATGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCAc > 1:350313/1‑68 (MQ=255)
aaGATGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCAc > 1:3365914/1‑68 (MQ=255)
aaGATGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCAc > 1:3019535/1‑68 (MQ=255)
aaGATGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCa < 1:1079236/70‑1 (MQ=255)
aaGATGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCa < 1:1146035/70‑1 (MQ=255)
aaGATGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCa < 1:1410403/70‑1 (MQ=255)
aGATGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCaca < 1:2183682/71‑3 (MQ=255)
aGATGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGa < 1:2683596/71‑1 (MQ=255)
aTGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGa < 1:258487/69‑1 (MQ=255)
aTGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGAtg > 1:3264055/1‑71 (MQ=255)
tGCTTACTACAAGTTGACTCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGAtgt > 1:4053584/1‑71 (MQ=255)
tGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGAtgt > 1:3205340/1‑71 (MQ=255)
tGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGAtgt > 1:2934708/1‑71 (MQ=255)
tGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGAtgt < 1:3215803/71‑1 (MQ=255)
tGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGAtgt > 1:716593/1‑71 (MQ=255)
tacAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGa < 1:1876781/61‑1 (MQ=255)
cAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAATTGCACCAGATGTGCCTGAAAg > 1:1832936/1‑71 (MQ=255)
cAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGAtg > 1:327060/1‑61 (MQ=255)
cAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAg > 1:2646171/1‑71 (MQ=255)
gTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGc < 1:2975492/50‑1 (MQ=255)
gTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGc < 1:126639/50‑1 (MQ=255)
gTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGa < 1:3049432/56‑1 (MQ=255)
tGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAgtggtg > 1:1213521/1‑71 (MQ=255)
gACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAATTGCACCAGATGTGCCTGAAAgtggtg > 1:638314/1‑70 (MQ=255)
cTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGaaaa < 1:2523536/71‑1 (MQ=255)
cGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGc > 1:1982628/1‑52 (MQ=255)
cGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGc > 1:680378/1‑52 (MQ=255)
cGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAg > 1:1334381/1‑71 (MQ=255)
gCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGt < 1:1356714/71‑1 (MQ=255)
aGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGc > 1:486768/1‑47 (MQ=255)
aGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGc > 1:3956052/1‑47 (MQ=255)
aGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGc > 1:2195393/1‑47 (MQ=255)
ggTTGAAAAGCTGGAAGAAGTCACCGCCGAATTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCg > 1:1348496/1‑71 (MQ=255)
ggTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGAt > 1:1993703/1‑69 (MQ=255)
gTTGAAAAGCTGGAAGAAGTCACCGCCGAATTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTg < 1:309107/66‑1 (MQ=255)
gTTGAAAAGCTGGAAGAAGTCACCGCCGAATTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTg < 1:571462/66‑1 (MQ=255)
gTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAgtgg < 1:1231759/55‑1 (MQ=255)
tGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGc > 1:104261/1‑69 (MQ=255)
gAAAAGCTGGAAGAAGTCACCGCCGAATTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAg > 1:3225664/1‑71 (MQ=255)
aaaaGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGc < 1:1004955/71‑1 (MQ=255)
aaaaGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGc < 1:834523/71‑1 (MQ=255)
aaaaGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGc < 1:2997577/71‑1 (MQ=255)
aaaaGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGc < 1:773340/71‑1 (MQ=255)
aaaaGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGATGGAAAAAGTGATCGCCAGc < 1:2381153/71‑1 (MQ=255)
aaaGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGc > 1:2791165/1‑70 (MQ=255)
aaaGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGc < 1:656025/70‑1 (MQ=255)
aaaGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCg < 1:3355675/71‑1 (MQ=255)
aGCTGGAAGAAGTCACCGCCGAATTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGa > 1:3447331/1‑70 (MQ=255)
aGCTGGAAGAAGACACCGCCGAATTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGa > 1:937071/1‑70 (MQ=255)
gCTGGAAGAAGTCACCGCCGAATTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATg < 1:1367231/71‑1 (MQ=255)
gCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCg < 1:539081/68‑1 (MQ=255)
gCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGAt > 1:3603272/1‑70 (MQ=255)
cTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTg < 1:3810089/57‑1 (MQ=255)
gaagaaGTCACCGCCGAATTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCt < 1:1042212/71‑1 (MQ=255)
gaagaaGTCACCGCCGAATTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCt < 1:222371/71‑1 (MQ=255)
gaagaaGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGa > 1:4009180/1‑68 (MQ=255)
gaagaaGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGa > 1:3386418/1‑68 (MQ=255)
gaagaaGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCt > 1:2059737/1‑71 (MQ=255)
gaagaaGTCACAGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCt < 1:3200519/71‑1 (MQ=255)
aagaagTCACCGCCGAACTGCACCAGATGTGCCTGAAAgtgg < 1:3984274/42‑1 (MQ=255)
agaagTCACCGCCGAACTGCACCAGATGTGCCTGa > 1:3138423/1‑35 (MQ=255)
gaagTCACCGCCTAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCtga > 1:1321288/1‑70 (MQ=255)
agTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCtgatga > 1:3770243/1‑71 (MQ=255)
tCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGa < 1:4079062/61‑1 (MQ=255)
tCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCTGATGAc > 1:1401748/1‑70 (MQ=255)
aCCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATc > 1:1658741/1‑48 (MQ=255)
aCTGCACCAGATGTGCCTGAAAGTGGTGGAATAAGTGATCGCCAGCg < 1:3964046/47‑1 (MQ=255)
|
CTGGTGTGAAGATGCTTACTACAAGTTGACCCTCGCCCAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCTGATGAC > W3110S.gb/3179169‑3179297
|
| 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
