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 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,174,189 |
C→T |
43.7% |
intergenic (+20/+9) |
bfr → / ← gspO |
bacterioferritin, iron storage and detoxification protein/bifunctional prepilin leader peptidase and methylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,174,189 | 0 | C | T | 43.7%
| 18.9
/ 60.6
| 48 | intergenic (+20/+9) | bfr/gspO | bacterioferritin, iron storage and detoxification protein/bifunctional prepilin leader peptidase and methylase |
| Reads supporting (aligned to +/- strand): ref base C (13/14); new base T (11/10); total (24/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGGGCCTGCAAAATTATCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTATCATGCTGCCGAGCGCAAGCCAC > W3110S.gb/4174123‑4174255
|
tGGGCCTGCAAAATTATCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTc > 1:275100/1‑71 (MQ=255)
tGGGCCTGCAAAATTATCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTc > 1:864948/1‑71 (MQ=255)
tGGGCCTGCAAAATTATCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTc > 1:1461558/1‑71 (MQ=255)
cAAAATTATCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGCGGGAGAACCCTCCCGGTtaa > 1:902015/1‑71 (MQ=255)
cAAAATTATCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGtt < 1:1127853/69‑1 (MQ=255)
cAAAATTATCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGtt < 1:382562/69‑1 (MQ=255)
cAAAATTATCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGtt < 1:876117/69‑1 (MQ=255)
cAAAATTATCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGt > 1:1074539/1‑68 (MQ=255)
cAAAATTATCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGTtaa > 1:58363/1‑71 (MQ=255)
cAAAATTATCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGTta > 1:401030/1‑70 (MQ=255)
aaaaTTATCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGtt < 1:1039175/68‑1 (MQ=255)
aTCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGATGGAGAATCCTCCCGGTTAATAagag < 1:1386226/70‑1 (MQ=255)
aTCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAATCCTCCCGGTTAATAagag < 1:833440/70‑1 (MQ=255)
aTCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAATCCTCCCGGTTAATAagag < 1:148610/70‑1 (MQ=255)
aTCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAATCCTCCCGGTTAATAagag < 1:148976/70‑1 (MQ=255)
aTCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAATCCTCCCGGTTAATAagag < 1:412833/70‑1 (MQ=255)
aTCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAATCCTCCCGGTTAATAagag < 1:1669097/70‑1 (MQ=255)
aaGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGTTAATAAGAGATc < 1:1951726/67‑1 (MQ=255)
cacaGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGTTAATAAGAGATCCAGGCCa < 1:1317020/71‑1 (MQ=255)
cacaGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGTTAATAAGAGATCCAGGCCa < 1:1313199/71‑1 (MQ=255)
cacaGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGTTAATAAGAGATCCAGGCCa < 1:1154484/71‑1 (MQ=255)
cacaGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGTTAATAAGAGATCCAGGCCa < 1:1086699/71‑1 (MQ=255)
caGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAATCCTCCCGGTTAATAAGAGATCCAGGCCAGa < 1:984784/71‑1 (MQ=255)
caGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAATCCTCCCGGTTAATAAGAGATCCAGGCCAGa < 1:844726/71‑1 (MQ=255)
caGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAATCCTCCCGGTTAATAAGAGATCCAGGCCAGa < 1:399383/71‑1 (MQ=255)
caGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAATCCTCCCGGTTAATAAGAGATCCAGGCCAGa < 1:1066414/71‑1 (MQ=255)
agGTTGAGCCGTGTCGGGAGGGAGAATCCTCCCGGTtaata > 1:1472996/1‑41 (MQ=255)
agGTTGAGCCGTGTCGGGAGGGAGAATCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTAt > 1:371374/1‑71 (MQ=255)
agGTTGAGCCGTGTCGGGAGGGAGAATCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTAt > 1:111007/1‑71 (MQ=255)
agGTTGAGCCGTGTCGGGAGGGAGAATCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTAt > 1:1374813/1‑71 (MQ=255)
agGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTAt < 1:137217/71‑1 (MQ=255)
agGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTAt < 1:1530623/71‑1 (MQ=255)
agGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTAt < 1:1492546/71‑1 (MQ=255)
agGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTAt < 1:140989/71‑1 (MQ=255)
agGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTAt < 1:755416/71‑1 (MQ=255)
ttGAGCCGTGTCGGGAGGGAGAACCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTATCa > 1:1911158/1‑70 (MQ=255)
ttGAGCCGTGTCGGGAGGGAGAACCCGCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTAta > 1:764308/1‑68 (MQ=255)
tGAGCCGTGTCGGGAGGGAGAATCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTATCAtg > 1:683221/1‑71 (MQ=255)
tGAGCCGTGTCGGGAGGGAGAATCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTATCAt > 1:1268283/1‑70 (MQ=255)
gAGCCGTGTCGGGAGGGAGAATCCTCCCGGTTAATAAGAGATCCAGGCCAGATAcccc > 1:1540612/1‑58 (MQ=255)
agaATCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTATCATGCTGCCGAGCGCAAGCCAc > 1:750586/1‑71 (MQ=255)
agaATCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTATCATGCTGCCGAGCGCAAGCCAc > 1:799893/1‑71 (MQ=255)
agaATCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTATCATGCTGCCGAGCGCAAGCCAc > 1:50290/1‑71 (MQ=255)
agaATCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTATCATGCTGCCGAGCGCAAGCCAc > 1:278774/1‑71 (MQ=255)
agaACCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTATTATGCTGCCGAGCGCAAGCCAc > 1:529581/1‑71 (MQ=255)
agaACCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTATCATGCTGCCGAGCGCAAGCCAc > 1:351055/1‑71 (MQ=255)
agaACCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTATCATGCTGCCGAGCGCAAGCCAc > 1:454046/1‑71 (MQ=255)
agaACCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTATCATGCTGCCGAGCGCAAGCCAc > 1:1853748/1‑71 (MQ=255)
|
TGGGCCTGCAAAATTATCTGCAAGCACAGATCCGCGAAGAAGGTTGAGCCGTGTCGGGAGGGAGAACCCTCCCGGTTAATAAGAGATCCAGGCCAGATACCCCAGGTTTATCATGCTGCCGAGCGCAAGCCAC > W3110S.gb/4174123‑4174255
|
| 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
