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 |
1,926,225 |
G→A |
65.6% |
G56G (GGG→GGA) |
lysR → |
DNA‑binding transcriptional dual regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,926,225 | 0 | G | A | 65.6%
| 62.2
/ 51.5
| 90 | G56G (GGG→GGA) | lysR | DNA‑binding transcriptional dual regulator |
| Reads supporting (aligned to +/- strand): ref base G (11/20); new base A (38/21); total (49/41) |
| Fisher's exact test for biased strand distribution p-value = 1.38e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.00e-01 |
GTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGG > minE/1926160‑1926282
|
gTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCg > 1:1056198/1‑68 (MQ=255)
gTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCg > 1:1080474/1‑68 (MQ=255)
gTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCg > 1:3310460/1‑68 (MQ=255)
gTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCg > 1:2054584/1‑68 (MQ=255)
gTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCg > 1:1561928/1‑68 (MQ=255)
cAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGAt > 1:391255/1‑68 (MQ=255)
cAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGAt > 1:1658232/1‑68 (MQ=255)
cAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGAt > 1:885075/1‑68 (MQ=255)
ccGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTAc < 1:335243/68‑1 (MQ=255)
ccGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACa < 1:77723/69‑1 (MQ=255)
cgcgAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACAt < 1:987488/69‑1 (MQ=255)
cgcgAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACAt > 1:1216001/1‑69 (MQ=255)
gcgAACTTGCGCGCTTTGAGAAGGTGATCTGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACAt < 1:3080090/68‑1 (MQ=255)
gcgAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACAt < 1:2274830/68‑1 (MQ=255)
tggcgctcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:2456249/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:702964/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:513153/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:448398/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:2167019/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:69235/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:945830/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:700926/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:1440642/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:2527831/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:2532581/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:1734373/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:1705307/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:1142609/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:1452194/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:280233/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:3009250/56‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAt < 1:2717935/55‑1 (MQ=255)
tggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTG‑TTGAGCGCATACGTGGACGAtt < 1:3076157/55‑1 (MQ=255)
ggcgcgcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:642743/56‑1 (MQ=255)
gcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAg < 1:1508491/69‑1 (MQ=255)
gcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAg < 1:373279/69‑1 (MQ=255)
gcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAg < 1:1317028/69‑1 (MQ=255)
gcTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAg < 1:1497441/69‑1 (MQ=255)
cTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAg < 1:3022359/68‑1 (MQ=255)
cTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAg < 1:1512357/68‑1 (MQ=255)
cTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAg < 1:1636784/68‑1 (MQ=255)
cTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAg < 1:2726996/68‑1 (MQ=255)
ttGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGAtt < 1:325286/49‑1 (MQ=39)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAg > 1:3264517/1‑65 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:2320828/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:3145605/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:3050184/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:3048806/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:149535/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:3223679/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:2775312/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:3307109/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:904886/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:2608789/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:1293555/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:849064/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:25324/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:187868/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:2524650/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:2066875/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:2498113/1‑69 (MQ=255)
tGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACt > 1:617717/1‑69 (MQ=255)
tGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTg < 1:1062775/68‑1 (MQ=255)
tGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTg < 1:2746768/68‑1 (MQ=255)
tGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTg < 1:1782623/68‑1 (MQ=255)
tGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTg < 1:2305661/68‑1 (MQ=255)
tGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTg < 1:2346847/68‑1 (MQ=255)
gggCTGGAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:437693/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGt > 1:2466603/1‑47 (MQ=39)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:2417679/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:1121565/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:1401018/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:1444412/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:155363/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:1889476/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:735632/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:1970789/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:2017561/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:3066329/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:250551/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:3317154/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:2630477/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:2706575/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:2728534/1‑68 (MQ=255)
gggCTGAAATTGTTTGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTga > 1:3180815/1‑68 (MQ=255)
gggCTGAAATTGTATGAGCGCATACGTGGACGATTACATCCTACCGTGCAAGGACTGCGTCTg > 1:626387/1‑63 (MQ=255)
gTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACg > 1:210690/1‑69 (MQ=255)
gTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACg > 1:2473669/1‑69 (MQ=255)
cgcgTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTgg < 1:2583304/69‑1 (MQ=255)
cgcgTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTgg < 1:2789735/69‑1 (MQ=255)
|
GTCAGCCGCGAACTTGCGCGCTTTGAGAAGGTGATCGGGCTGAAATTGTTTGAGCGCGTACGTGGGCGATTACATCCTACCGTGCAAGGACTGCGTCTGTTTGAAGAAGTGCAACGATCCTGG > minE/1926160‑1926282
|
| 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
