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 |
280,674 |
C→T |
69.9% |
T447T (ACG→ACA) |
ampG ← |
muropeptide transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 280,674 | 0 | C | T | 69.9%
| 78.1
/ 40.3
| 86 | T447T (ACG→ACA) | ampG | muropeptide transporter |
| Reads supporting (aligned to +/- strand): ref base C (7/19); new base T (7/53); total (14/72) |
| Fisher's exact test for biased strand distribution p-value = 1.11e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.13e-01 |
ACTAAAACCCCGACTTCCAGCAGAGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACAGGCTGACGCCCGCCGCCAGTGTC > minE/280609‑280725
|
aCTAAAACCCCGACTTCCAGCAGAGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTc < 1:436405/69‑1 (MQ=255)
aCTAAAACCCCGACTTCCAGCAGAGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTc < 1:743080/69‑1 (MQ=255)
aCTAAAACCCCGACTTCCAGCAGAGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTc < 1:270779/69‑1 (MQ=255)
aaaCCCCGACTTCCAGCAGAGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTCAAt > 1:1045771/1‑68 (MQ=255)
aaaCCCCGACTTCCAGCAGAGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTCAAt > 1:3363924/1‑68 (MQ=255)
aCCCCGACTTCCAGCAGCGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATTGTc > 1:215375/1‑63 (MQ=255)
aCCCCGACTTCCAGCAGCGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATTGTCa > 1:3160655/1‑64 (MQ=255)
aCCCCGACTTCCAGCAGCGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATTGTCa > 1:543842/1‑64 (MQ=255)
aCCCCGACTTCCAGCAGCGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATTGTCa > 1:533714/1‑64 (MQ=255)
aCCCCGACTTCCAGCAGCGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATTGTCa > 1:3356141/1‑64 (MQ=255)
aCCCCGACTTCCAGCAGCGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATTGTCa > 1:121446/1‑64 (MQ=255)
aCCCCGACTTCCAGCAGCGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATTGTCa > 1:1131309/1‑64 (MQ=255)
ccccGACTTCCAGCAGAGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTCAATAGCa < 1:3219696/69‑1 (MQ=255)
ccccGACTTCCAGCAGAGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTCAATAGCa < 1:2110344/69‑1 (MQ=255)
ccccGACTTCCAGCAGAGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTCAATAGCa < 1:3399772/69‑1 (MQ=255)
ccccGACTTCCAGCAGAGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTCAATAGCa < 1:2603145/69‑1 (MQ=255)
ccccGACTTCCAGCAGAGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTCAATAGCa < 1:1619579/69‑1 (MQ=255)
caggcaggAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACa > 1:1177924/1‑69 (MQ=255)
caggcaggAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACa > 1:1954699/1‑69 (MQ=255)
caggcaggAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACa > 1:285426/1‑69 (MQ=255)
gcaggAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTc < 1:944258/41‑1 (MQ=255)
ggAAAGAGAATTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:57510/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:3002621/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:3213644/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:3062367/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:2234009/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:2227097/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:277031/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:308673/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:214470/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:1966774/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:1971161/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:1112671/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:115546/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:1211647/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:1229140/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:77560/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:763681/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:729104/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:723682/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:1780771/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:663665/69‑1 (MQ=255)
ggAAAGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCAAACGGCCAACAGGCTGa < 1:1798271/69‑1 (MQ=255)
aaaGAGAAGTGCGCCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGCTGa < 1:2823559/67‑1 (MQ=255)
agagAAGTGCGTCAAATCCAGCGCGTCCATCGTCAATAGCAGTAACCAGACGGCCAACAGGCTGAcgcc < 1:2094732/69‑1 (MQ=255)
agagAAGTGCGTCAAATCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACAGGCTGAcgcc < 1:1802814/69‑1 (MQ=255)
agagAAGTGCGTCAAATCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACAGGCTGAcgcc < 1:1315470/69‑1 (MQ=255)
agagAAGTGCGTCAAATCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACAGGCTGAcgcc < 1:3095193/69‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:715337/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:707248/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:81290/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:3295798/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:617016/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:839281/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:976102/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:1015302/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:2105298/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:104493/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:1158559/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:1199878/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:1488257/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:1713918/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:1723942/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:1743315/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:1754500/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:1963780/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:3145986/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:2137565/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:2183877/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:2967349/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:2317350/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:2890700/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:287670/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:2329001/53‑1 (MQ=255)
cGTCAAATCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:2366968/53‑1 (MQ=255)
aaaTCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACAGGCTGACGCCCGCCGCCAGTGTc < 1:460054/69‑1 (MQ=255)
aaaTCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACAGGCTGACGCCCGCCGCCAGTGTc < 1:1421227/69‑1 (MQ=255)
aaaTCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACAGGCTGACGCCCGCCGCCAGTGTc < 1:1586174/69‑1 (MQ=255)
aaaTCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACAGGCTGACGCCCGCCGCCAGTGTc < 1:1634126/69‑1 (MQ=255)
aaaTCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACAGGCTGACGCCCGCCGCCAGTGTc < 1:333246/69‑1 (MQ=255)
aaaTCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACAGGCTGACGCCCGCCGCCAGTGTc < 1:2723114/69‑1 (MQ=255)
aaaTCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACAGGCTGACGCCCGCCGCCAGTGTc > 1:183328/1‑69 (MQ=255)
aaaTCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACAGGCTGACGCCCGCCGCCAGTGTc > 1:3436153/1‑69 (MQ=255)
aTCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCGAACAGGCTGa < 1:5050/50‑1 (MQ=255)
aTCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:3106103/47‑1 (MQ=39)
tCCAGCGCGTCCATTGTCAACAGCAGTAACCACACGGCCAACAGGc < 1:641346/46‑1 (MQ=39)
|
ACTAAAACCCCGACTTCCAGCAGAGCAGGCAGGAAAGAGAAGTGCGTCAAATCCAGCGCGTCCATCGTCAATAGCAGTAACCACACGGCCAACAGGCTGACGCCCGCCGCCAGTGTC > minE/280609‑280725
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
