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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,108,643 |
G→C |
36.5% |
L138L (CTG→CTC) |
kbaY → |
tagatose 6‑phosphate aldolase 1, kbaY subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,108,643 | 0 | G | C | 36.5%
| 59.2
/ 65.1
| 78 | L138L (CTG→CTC) | kbaY | tagatose 6‑phosphate aldolase 1, kbaY subunit |
| Reads supporting (aligned to +/- strand): ref base G (17/30); new base C (8/20); total (25/53) |
| Fisher's exact test for biased strand distribution p-value = 6.15e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.10e-01 |
CTGGTGAAATCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTCCTGACCGATCCACAAGAAGCTA > minE/2108575‑2108710
|
cTGGTGAAATCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTg < 1:1132669/69‑1 (MQ=255)
cTGGTGAAATCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTg < 1:103442/69‑1 (MQ=255)
cTGGTGAAATCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTg < 1:1337947/69‑1 (MQ=255)
cTGGTGAAATCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTg < 1:2138809/69‑1 (MQ=255)
gAAATCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCC‑CCTGGGCGgt < 1:1210538/69‑1 (MQ=255)
aaaTCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTTGGCGgt < 1:440964/69‑1 (MQ=255)
aaaTCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGgt > 1:303378/1‑69 (MQ=255)
aaaTCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGgt > 1:463472/1‑69 (MQ=255)
aaaTCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGgt < 1:330574/69‑1 (MQ=255)
aaaTCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGgt > 1:3303127/1‑69 (MQ=255)
aaaTCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGgt < 1:2162041/69‑1 (MQ=255)
aaaTCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGgt > 1:2831868/1‑69 (MQ=255)
aaaTCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGgt < 1:1981984/69‑1 (MQ=255)
aaaTCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGgt < 1:1922503/69‑1 (MQ=255)
aaaTCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGgt > 1:3095063/1‑69 (MQ=255)
aaaTCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGgt < 1:1568452/69‑1 (MQ=255)
aaaTCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGgt > 1:1558221/1‑69 (MQ=255)
aaaTCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGgt < 1:1470811/69‑1 (MQ=255)
aaaTCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGgt < 1:1187335/69‑1 (MQ=255)
aaaTCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTAGGCGgt < 1:1979680/69‑1 (MQ=255)
aTCGGTTGTCGACTTCTGCCACTCCCAGGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTCGGCGgtg > 1:2470910/1‑68 (MQ=255)
aTCGGTTGTCGACTTCTGCCACTCCCAGGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTCGGCGgtg > 1:2404850/1‑68 (MQ=255)
aTCGGTTGTCGACTTCTGCCACTCCCAGGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTCGGCGgtg > 1:2846449/1‑68 (MQ=255)
aTCGGTTGTCGACTTCTGCCACTCCCAGGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTCGGCGgtg > 1:2991590/1‑68 (MQ=255)
aTCGGTTGTCGACTTCTGCCACTCCCAGGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTCGGCGgtg > 1:2255627/1‑68 (MQ=255)
aTCGGTTGTCGACTTCTGCCACTCCCAGGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTCGGCGgtg > 1:90784/1‑68 (MQ=255)
aTCGGTTGTCGACTTCTGCCACTCCCAGGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTCGGCGgtg > 1:1254521/1‑68 (MQ=255)
aTCGGTTGTCGACTTCTGCCACTCCCAGGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTCGGCGgtg > 1:1352660/1‑68 (MQ=255)
ttgttgACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGaa < 1:1575329/68‑1 (MQ=255)
ttgttgACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGaa < 1:1084740/68‑1 (MQ=255)
ttgttgACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGaa < 1:559259/68‑1 (MQ=255)
ttgttgACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGaa < 1:609833/68‑1 (MQ=255)
ttgttgACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGaa < 1:1565135/68‑1 (MQ=255)
ttgttgACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAg > 1:347753/1‑69 (MQ=255)
ttgttgACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAg > 1:2426429/1‑69 (MQ=255)
gACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGa < 1:1269058/68‑1 (MQ=255)
gACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGa < 1:2006763/68‑1 (MQ=255)
gACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGa < 1:755041/68‑1 (MQ=255)
gACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGa < 1:818254/68‑1 (MQ=255)
aCTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGACATGAGCGtt < 1:2834508/68‑1 (MQ=255)
aCTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGACATGAGCGtt < 1:1064556/68‑1 (MQ=255)
aCTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGACATGAGCGtt < 1:247114/68‑1 (MQ=255)
aCTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGACATGAGCGtt < 1:2393023/68‑1 (MQ=255)
aCTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGACATGAGCGtt < 1:506496/68‑1 (MQ=255)
aCTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGACATGAGCGtt < 1:2225265/68‑1 (MQ=255)
aCTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGACATGAGCGtt < 1:2153834/68‑1 (MQ=255)
aCTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGACATGAGCGtt < 1:178902/68‑1 (MQ=255)
aCTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGACATGAGCGtt < 1:1526320/68‑1 (MQ=255)
cacaAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGa > 1:3285058/1‑55 (MQ=255)
cacaAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGa > 1:3261625/1‑55 (MQ=255)
cacaAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGa > 1:625085/1‑55 (MQ=255)
cacaAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGa > 1:861391/1‑55 (MQ=255)
cacaAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGa > 1:953462/1‑55 (MQ=255)
cacaAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGa > 1:1177718/1‑55 (MQ=255)
cacaAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGa > 1:2638575/1‑55 (MQ=255)
cacaAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGa > 1:2875672/1‑55 (MQ=255)
cacaAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGa > 1:2060965/1‑55 (MQ=255)
gCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTg < 1:748033/69‑1 (MQ=255)
gCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTg < 1:395746/69‑1 (MQ=255)
gAAGCTGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:3374551/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:489854/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:1204972/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:872635/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:1663172/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:1962695/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:660451/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:2033761/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:2053746/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:584933/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:2282237/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:488612/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:267498/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:2738266/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:2763336/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:2833854/67‑1 (MQ=255)
gAAGCAGAACTGGGCCGCCTAGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:434808/67‑1 (MQ=255)
aaGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:3378705/66‑1 (MQ=255)
aaGCAGAACTGGGCCGCCTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:1693008/66‑1 (MQ=255)
cgccTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:235322/52‑1 (MQ=255)
ccTCGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTcc < 1:2644062/50‑1 (MQ=255)
tGGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTCCTGACCGATCCACAAGAAGCTa < 1:3414964/69‑1 (MQ=255)
tGGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTCCTGACCGATCCACAAGAAGCTa < 1:915564/69‑1 (MQ=255)
|
CTGGTGAAATCGGTTGTTGACTTCTGCCACTCACAAGATTGCAGCGTGGAAGCAGAACTGGGCCGCCTGGGCGGTGTTGAAGATGACATGAGCGTTGACGCCGAAAGTGCATTCCTGACCGATCCACAAGAAGCTA > minE/2108575‑2108710
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
