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 |
3,915,241 |
A→G |
30.2% |
E48G (GAG→GGG) |
glyQ → |
glycine tRNA synthetase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,915,241 | 0 | A | G | 30.2%
| 53.6
/ 33.3
| 43 | E48G (GAG→GGG) | glyQ | glycine tRNA synthetase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base A (18/12); new base G (5/8); total (23/20) |
| Fisher's exact test for biased strand distribution p-value = 3.18e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.44e-01 |
TTGTTCAACCATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATGGTCGCTACG > W3110S.gb/3915178‑3915309
|
ttGTTCAACCATTGGACATGGTAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTgggg > 1:3201253/1‑71 (MQ=255)
ttGTTCAACCATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGGGCTgg < 1:73552/69‑1 (MQ=255)
gTTCAACCATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGc > 1:3786094/1‑70 (MQ=255)
ccATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGGGCTGGGGCCAGAAcc < 1:3790545/71‑1 (MQ=255)
ttGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGGGCTGGGGCCAGAACCGAt > 1:4523004/1‑71 (MQ=255)
ttGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGAt < 1:3808148/71‑1 (MQ=255)
ttGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGAt < 1:2913504/71‑1 (MQ=255)
ttGGACACGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGAt < 1:5014180/71‑1 (MQ=255)
aCATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGa < 1:4756912/66‑1 (MQ=255)
ggAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGGGCTGGGGCCAGAACCGATGGCGgctg > 1:544761/1‑71 (MQ=255)
ggAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGGGCTGGGGCCAGAACCGATGGCGgctg > 1:4171129/1‑71 (MQ=255)
aaGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGgctgct < 1:2332488/71‑1 (MQ=255)
gTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGc < 1:1670094/43‑1 (MQ=255)
tCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGGGCTGGGGCCAGAAcc < 1:2777322/55‑1 (MQ=255)
tCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGGGCTGGGGCCAGAAcc < 1:2436518/55‑1 (MQ=255)
ggCGCGGGAACCTCTCACCCAATGACCTGTCTGCGGGGGCTGGGGCCAGAACCGATGGCGGCTGCTTATg < 1:2722932/70‑1 (MQ=255)
ggCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGGGCTGGGGCCAGAACCGATGGCGGCTGCTTATg < 1:636914/70‑1 (MQ=255)
ggCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATg < 1:2252079/70‑1 (MQ=255)
gcgGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCa < 1:4455536/71‑1 (MQ=255)
gcgGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCa < 1:2942134/71‑1 (MQ=255)
gAACCTCTCACCCAATGACCTGTCTGCGCGGGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCt > 1:2809654/1‑71 (MQ=255)
ctctCACCCAATGACCTGTCTTCGCGGGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTtctc < 1:1346710/71‑1 (MQ=255)
ctctCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATg < 1:4388981/59‑1 (MQ=255)
ctcACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGgctg > 1:2927088/1‑51 (MQ=255)
ctcACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGgctg > 1:1103514/1‑51 (MQ=255)
ctcACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGgctg > 1:226846/1‑51 (MQ=255)
ctcACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGgctg > 1:4940333/1‑51 (MQ=255)
ctcACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGgctg > 1:3090733/1‑51 (MQ=255)
ctcACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCtcgt > 1:3284374/1‑71 (MQ=255)
ccAATGACCTGTCTGCGCGGGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGccc > 1:4725686/1‑71 (MQ=255)
ccAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGccc > 1:4119435/1‑71 (MQ=255)
ccAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGccc > 1:2892561/1‑71 (MQ=255)
aTGACCTGTCTGCGCGATCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGc > 1:2979030/1‑55 (MQ=255)
aTGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTtctc < 1:3566218/61‑1 (MQ=255)
aTGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCccgac > 1:3618838/1‑71 (MQ=255)
gACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCtcgt > 1:2982550/1‑61 (MQ=255)
tCTGCGCGGGCTGGGGCCAGAACCGATGGCGGCTGCTTAt < 1:2847011/40‑1 (MQ=255)
tCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATGGTc > 1:2417448/1‑71 (MQ=255)
tGCTCGATCTGGCGCCAGAACCGATGGCGGCTGCTTATGTTCAGcc > 1:2347602/1‑46 (MQ=38)
tGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATGGTCGc > 1:3046975/1‑71 (MQ=255)
cgcgAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATGGTCGc < 1:2718205/69‑1 (MQ=255)
cgAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATGGTCGCTACg > 1:3672868/1‑71 (MQ=255)
cgAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATGGTCGCTACg > 1:3166786/1‑71 (MQ=255)
|
TTGTTCAACCATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATGGTCGCTACG > W3110S.gb/3915178‑3915309
|
| 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
