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 |
935,197 |
C→G |
49.5% |
T898T (ACC→ACG) |
fdnG → |
formate dehydrogenase‑N, alpha subunit, nitrate‑inducible |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 935,197 | 0 | C | G | 49.5%
| ‑2.3
/ 119.1
| 95 | T898T (ACC→ACG) | fdnG | formate dehydrogenase‑N, alpha subunit, nitrate‑inducible |
| Reads supporting (aligned to +/- strand): ref base C (34/14); new base G (27/20); total (61/34) |
| Fisher's exact test for biased strand distribution p-value = 2.03e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.24e-01 |
AACAAGACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTGGACCAAGCACGCATTGCTCAACGCAATTGCTCAGCCGGAACAGTTTG > minE/935130‑935261
|
aaCAAGACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGCCCTATCGTCTGACCg > 1:196294/1‑69 (MQ=255)
aaCAAGACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCg > 1:3155182/1‑69 (MQ=255)
aaCAAGACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCg > 1:2488139/1‑69 (MQ=255)
aaCAAGACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCg > 1:2610946/1‑69 (MQ=255)
aaCAAGACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCg > 1:2753512/1‑69 (MQ=255)
aaCAAGACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCg > 1:304368/1‑69 (MQ=255)
aaCAAGACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCg > 1:126644/1‑69 (MQ=255)
aaCAAGACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCg > 1:3293589/1‑69 (MQ=255)
aaCAAGACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCg > 1:39840/1‑69 (MQ=255)
aaCAAGACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCg > 1:583565/1‑69 (MQ=255)
aaCAAGACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCg > 1:1128779/1‑69 (MQ=255)
aGACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCa < 1:3004884/69‑1 (MQ=255)
aGACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCa < 1:2863952/69‑1 (MQ=255)
gACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCAc < 1:1159332/69‑1 (MQ=255)
gACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCAc < 1:3411538/69‑1 (MQ=255)
gACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCAc < 1:886017/69‑1 (MQ=255)
gACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCAc < 1:1927041/69‑1 (MQ=255)
gcgcTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTc < 1:2690176/69‑1 (MQ=255)
gcgcTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTc < 1:1018229/69‑1 (MQ=255)
tGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCg > 1:1637233/1‑51 (MQ=255)
tGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTgg > 1:2348531/1‑68 (MQ=255)
tGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTgg > 1:3185968/1‑68 (MQ=255)
tGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTgg > 1:2680829/1‑68 (MQ=255)
tGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTgg > 1:705029/1‑68 (MQ=255)
tGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTgg > 1:2166546/1‑68 (MQ=255)
tGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTgg > 1:109469/1‑68 (MQ=255)
tGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTgg > 1:1114005/1‑68 (MQ=255)
tGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTgg > 1:1218512/1‑68 (MQ=255)
tGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTgg > 1:1236116/1‑68 (MQ=255)
tGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTgg > 1:1400206/1‑68 (MQ=255)
tGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCAAACCTgg > 1:1481178/1‑68 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:1980794/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:973874/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:875122/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:1119242/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:4721/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:366570/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:2592750/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:1006481/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:2274636/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:195942/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:1984540/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:217364/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:1995174/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:2081494/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:2112532/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:2134397/69‑1 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTGGACCAAg > 1:2899731/1‑68 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTGGACCAAg > 1:3291961/1‑68 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTGGACCAAg > 1:1412137/1‑68 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTGGACCAAGc > 1:2345637/1‑69 (MQ=255)
aaaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTGGACCAAGc > 1:2955324/1‑69 (MQ=255)
aaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:1255190/68‑1 (MQ=255)
aaaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:2757531/68‑1 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGa > 1:3138583/1‑44 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGa > 1:2438041/1‑44 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:2052993/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:2022447/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:3320258/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:1204126/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:428951/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:2071533/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:471810/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:3267883/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:2017224/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:2015296/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:700092/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:1308513/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:2012865/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:2240210/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:2450336/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:2181632/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:2253847/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:2330751/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:2381577/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:1677333/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:2544055/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:1548760/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:2884466/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:1408334/1‑45 (MQ=255)
aaaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACGGAg > 1:1409815/1‑45 (MQ=255)
aaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTGGACCAAGCACg < 1:1847764/69‑1 (MQ=255)
aaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTGGACCAAGCACg < 1:806662/69‑1 (MQ=255)
aaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTGGACCAAGCACg < 1:867353/69‑1 (MQ=255)
aaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTGGACCAAGCACg < 1:2318257/69‑1 (MQ=255)
aaGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTGGACCAAGCACg < 1:901830/69‑1 (MQ=255)
agagCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTGGACCAAGCACg < 1:730825/68‑1 (MQ=255)
cccGTATGTGGGTACGACCTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:2429758/56‑1 (MQ=255)
cccGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTGGACCAAGCACGCATTGCTCaa > 1:408476/1‑69 (MQ=255)
ccTATCGTCTGACGGAGCACTTCCACACCTGGACCAAGc < 1:2990790/39‑1 (MQ=255)
tCGTCTGACCGAGCACTTCCACACCTGGACCAAGCACGCATTGCTCAACGCAATTGCTCAGCCGGAACa > 1:1378535/1‑69 (MQ=255)
tCGTCTGACCGAGCACTTCCACACCTGGACCAAGCACGCATTGCTCAACGCAATTGCTCAGCCGGAACa > 1:729654/1‑69 (MQ=255)
tCGTCTGACCGAGCACTTCCACACCTGGACCAAGCACGCATTGCTCAACGCAATTGCTCAGCCGGAACa > 1:2551608/1‑69 (MQ=255)
tCGTCTGACCGAGCACTTCCACACCTGGACCAAGCACCCATTGCTCAACGCAATTGCTCAGCCGGAACa > 1:2466432/1‑69 (MQ=255)
tGACCGAGCACTTCCACACCTGGACCAAGCACGCATTGCTCAACGCAATTGCTCAGCCGGAACAGTTtg > 1:2852839/1‑69 (MQ=255)
|
AACAAGACGCGCTGCGGATGGGTAAAAAAGAGCAGTTCCCGTATGTGGGTACGACCTATCGTCTGACCGAGCACTTCCACACCTGGACCAAGCACGCATTGCTCAACGCAATTGCTCAGCCGGAACAGTTTG > minE/935130‑935261
|
| 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
