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 |
1,896,815 |
A→G |
38.5% |
S179S (TCA→TCG) |
argA → |
fused acetylglutamate kinase homolog (inactive) and amino acid N‑acetyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,896,815 | 0 | A | G | 38.5%
| 32.0
/ 45.9
| 70 | S179S (TCA→TCG) | argA | fused acetylglutamate kinase homolog (inactive) and amino acid N‑acetyltransferase |
| Reads supporting (aligned to +/- strand): ref base A (16/27); new base G (14/13); total (30/40) |
| Fisher's exact test for biased strand distribution p-value = 3.21e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCGATCCATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGCCACTCAACTGGCCATCAAA > minE/1896756‑1896875
|
gcgATCCATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGc < 1:1408747/69‑1 (MQ=255)
cgATCCATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGc < 1:1678124/68‑1 (MQ=255)
aTCCATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCgag < 1:2508971/69‑1 (MQ=255)
tCCATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCgag < 1:2699109/68‑1 (MQ=255)
ccATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCTGTCGCTGTTTCAGTCACTGGCGagag < 1:1618318/69‑1 (MQ=255)
ccATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCGGTCACTGGCGagag < 1:1579521/69‑1 (MQ=255)
ccATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCGGTCACTGGCGagag < 1:2577316/69‑1 (MQ=255)
ccATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCGGTCACTGGCGagag < 1:2845885/69‑1 (MQ=255)
ccATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCGGTCACTGGCGagag < 1:3171627/69‑1 (MQ=255)
ccATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCGGTCACTGGCGagag < 1:1789391/69‑1 (MQ=255)
ccATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCGGTCACTGGCGagag < 1:395147/69‑1 (MQ=255)
ccATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCGGTCACTGGCGagag < 1:467907/69‑1 (MQ=255)
ccATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCGGTCACTGGCGagag < 1:722996/69‑1 (MQ=255)
ccATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCGGTCACTGGCGagag < 1:955214/69‑1 (MQ=255)
ccATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCGGTCACTGGCGagag < 1:1085568/69‑1 (MQ=255)
ccATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCGGTCACTGGCGagag < 1:610045/69‑1 (MQ=255)
ccATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCGGTCACTGGCGagag < 1:518346/69‑1 (MQ=255)
ccATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGagag < 1:3305150/69‑1 (MQ=255)
ccATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGagag < 1:1458751/69‑1 (MQ=255)
cATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCGGTCACTGGCGagag < 1:1955993/68‑1 (MQ=255)
cATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGagag < 1:560088/68‑1 (MQ=255)
cATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGagag < 1:174347/68‑1 (MQ=255)
gTCTACTGGAGAGCGGTGGAATAGTGCTAATGGGGCCTGTCGCTGTTTCAGTCACTGGCGAGTGCTTTa < 1:3371437/69‑1 (MQ=255)
gTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTa < 1:877240/69‑1 (MQ=255)
cTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCt < 1:327871/68‑1 (MQ=255)
cTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCt < 1:3076956/68‑1 (MQ=255)
cTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCt < 1:1140628/68‑1 (MQ=255)
tGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTTACCTCGGAaga < 1:1164392/69‑1 (MQ=255)
tGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAaga < 1:1048837/69‑1 (MQ=255)
tGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAaga < 1:2047752/69‑1 (MQ=255)
gCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAagag < 1:2606765/69‑1 (MQ=255)
cAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAgaga > 1:2091122/1‑69 (MQ=255)
gTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAaga < 1:1580450/62‑1 (MQ=255)
gTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAaga < 1:2826586/62‑1 (MQ=255)
gTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAaga < 1:2783899/62‑1 (MQ=255)
gTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGcc > 1:3138342/1‑69 (MQ=255)
gTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGcc > 1:34078/1‑69 (MQ=255)
gTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGcc > 1:143769/1‑69 (MQ=255)
gTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGcc > 1:2484219/1‑69 (MQ=255)
gTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAAACTGACCTCGGAAGAGATTGc > 1:286732/1‑68 (MQ=255)
tAATGGGGCCGGTCGCTGTTTCAGTCACTTGCgag < 1:1351539/35‑1 (MQ=255)
gggCCGGTCGGTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGc < 1:1171285/59‑1 (MQ=255)
gggCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGc < 1:151580/59‑1 (MQ=255)
gggCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGc < 1:1016181/59‑1 (MQ=255)
gggCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGc < 1:1931606/59‑1 (MQ=255)
ggTCGCTGTTTCGGTCACTGGGGAGAGCTTTAATCTGACCTCGGAAGAGATTGCCACt > 1:149216/1‑58 (MQ=255)
ggTCGCTGTTTCGGTCACTGGCGAGAGCTTTAATCTGACCTCGGAAGAGATTGCGACt > 1:3258356/1‑58 (MQ=255)
ggTCGCTGTTTCGGTCACTGGCGAGAGCTTTAATCTGACCTCGGAAGAGATTGCCACt > 1:1985307/1‑58 (MQ=255)
ggTCGCTGTTTCGGTCACTGGCGAGAGCTTTAATCTGACCTCGGAAGAGATTGCCACt > 1:1242987/1‑58 (MQ=255)
ggTCGCTGTTTCGGTCACTGGCGAGAGCTTTAATCTGACCTCGGAAGAGATTGCCACt > 1:629937/1‑58 (MQ=255)
ggTCGCTGTTTCGGTCACTGGCGAGAGCTTTAATCTGACCTCGGAAGAGATTGCCACt > 1:1366711/1‑58 (MQ=255)
ggTCGCTGTTTCGGTCACTGGCGAGAGCTTTAATCTGACCTCGGAAGAGATTGCCACt > 1:2489919/1‑58 (MQ=255)
ggTCGCTGTTTCGGTCACTGGCGAGAGCTTTAATCTGACCTCGGAAGAGATTGCCACt > 1:2493728/1‑58 (MQ=255)
ggTCGCTGTTTCGGTCACTGGCGAGAGCTTTAATCTGACCTCGGAAGAGATTGCCACt > 1:464683/1‑58 (MQ=255)
ggTCGCTGTTTCGGTCACTGGCGAGAGCTTTAATCTGACCTCGGAAGAGATTGCCACt > 1:2076844/1‑58 (MQ=255)
ggTCGCTGTTTCGGTCACTGGCGAGAGCTTTAATCTGACCTCGGAAGAGATTGCCACt > 1:1989386/1‑58 (MQ=255)
ggTCGCTGTTTCGGTCACTGGCGAGAGCTTTAATCTGACCTCGGAAGAGATTGCCACt > 1:326352/1‑58 (MQ=255)
ggTCGCTGTTTCGGTCACTGGCGAGAGCTTTAATCTGACCTCGGAAGAGATTGCCACt > 1:216155/1‑58 (MQ=255)
ggTCGCTGTTTCGGTCACTGGCGAGAGCTTTAATCTGACCTCGGAAGAGATTGCCACt > 1:3134856/1‑58 (MQ=255)
cGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGCCACTCAAc > 1:652058/1‑59 (MQ=255)
gCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGCCACt > 1:2419889/1‑54 (MQ=255)
gCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGCCACTc > 1:2035645/1‑55 (MQ=255)
gCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGCCACTc > 1:846883/1‑55 (MQ=255)
gCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGCCACTc > 1:2181582/1‑55 (MQ=255)
gCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGCCACTCAACTGGCCATCaaa > 1:2960311/1‑69 (MQ=255)
gCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGCCACTCAACTGGCCATCaaa > 1:729903/1‑69 (MQ=255)
gCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGCCACTCAACTGGCCATCaaa > 1:899325/1‑69 (MQ=255)
gCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGCCACCCAACTGGCCATCaaa > 1:1656649/1‑69 (MQ=255)
gCTGTTTCAGTCACTGGCGAGAGCCTTAACCTGACCTCGGAAGAGATTGCCACTc > 1:3216522/1‑55 (MQ=255)
gTTTCAGTCACTGGCGAGAGCTTTATCCTGACCTCGGAagag < 1:232128/42‑1 (MQ=255)
aGTCACTGGCGAGAGCTTTAACCTGACCTCGGAaga < 1:336406/36‑1 (MQ=255)
|
GCGATCCATCGTCAACTGGACAGCGGTGCAATAGTGCTAATGGGGCCGGTCGCTGTTTCAGTCACTGGCGAGAGCTTTAACCTGACCTCGGAAGAGATTGCCACTCAACTGGCCATCAAA > minE/1896756‑1896875
|
| 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
