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 |
|
A12 F1 I2 R1
|
69 |
53.0 |
2252012 |
96.1% |
2164183 |
115.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,901,765 |
G→A |
G152G (GGC→GGT) |
bglH ← |
carbohydrate‑specific outer membrane porin, cryptic |
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,901,765 | 0 | G | A | 98.5%
| 227.7
/ NA
| 66 | G152G (GGC→GGT) | bglH | carbohydrate‑specific outer membrane porin, cryptic |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (31/34); minor base C (0/1); total (31/35) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AACCAGCCGGTAGAGTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGGCCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGTCATGGAAGA > NC_000913/3901631‑3901899
|
aaCCAGCCGGTAGAGTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCa < 2:673196/139‑1 (MQ=255)
aCCAGCCGGTAGAGTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCag < 2:386458/139‑1 (MQ=255)
aGCCGGTAGAGTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAgaga > 1:214832/1‑139 (MQ=255)
gtcctgctgACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGGCACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTAGTTACCAAAGCGCCCCAGAGAACCAATCGcc < 2:1082438/136‑1 (MQ=255)
gTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGcc < 1:108104/139‑1 (MQ=255)
gTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGcc < 2:687483/139‑1 (MQ=255)
gTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGcc < 2:491416/139‑1 (MQ=255)
gTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGcc < 2:134212/139‑1 (MQ=255)
gTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGcc < 1:908714/139‑1 (MQ=255)
ctgctgACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCAt > 1:844521/1‑139 (MQ=255)
ctgACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGAt > 1:214098/1‑139 (MQ=255)
aCCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTa > 2:1052890/1‑139 (MQ=255)
cAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAgg < 2:461082/139‑1 (MQ=255)
cAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAgg < 2:284526/139‑1 (MQ=255)
cGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGa < 1:224367/139‑1 (MQ=255)
gccatcATGAAGACGGCATCATCCAGTTTGCCAATTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAGACCAGCCGGAGTATTCGTAACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATgag < 2:844521/138‑1 (MQ=255)
ccatcATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATgaga < 1:826650/139‑1 (MQ=255)
catcatCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCaa < 2:938469/110‑1 (MQ=255)
catcatCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCaa > 1:938469/1‑110 (MQ=255)
catcatCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGagag > 2:965376/1‑139 (MQ=255)
catcaCAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCg < 2:50043/139‑1 (MQ=255)
catcaCAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCg < 1:965376/139‑1 (MQ=255)
tcaCAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGt > 2:969496/1‑139 (MQ=255)
tcaCAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGt < 2:290217/139‑1 (MQ=255)
caACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTccc < 1:164111/139‑1 (MQ=255)
caACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTccc > 1:766322/1‑139 (MQ=255)
gCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAAc < 1:1052890/139‑1 (MQ=255)
cATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAAcc > 1:37772/1‑139 (MQ=255)
cATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAAcc > 2:373019/1‑139 (MQ=255)
cATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAAcc > 2:329999/1‑139 (MQ=255)
tCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAGGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAg < 2:268822/139‑1 (MQ=255)
tCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCg < 1:912425/126‑1 (MQ=255)
tCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCg > 2:912425/1‑126 (MQ=255)
aaCCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGaa < 1:373019/139‑1 (MQ=255)
aCCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCg > 1:1118176/1‑123 (MQ=255)
aCCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCg < 2:1118176/123‑1 (MQ=255)
aCCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCg > 1:181526/1‑123 (MQ=255)
aCCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCg < 2:181526/123‑1 (MQ=255)
aCCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAAc > 1:41921/1‑139 (MQ=255)
cGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGt < 2:214098/139‑1 (MQ=255)
gCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAg < 2:9700/139‑1 (MQ=255)
ttttCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGt > 2:5455/1‑139 (MQ=255)
tttCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAg > 1:355910/1‑134 (MQ=255)
tttCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAg < 2:355910/134‑1 (MQ=255)
gttgttTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCg < 2:421556/95‑1 (MQ=255)
gttgttTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCg > 1:421556/1‑95 (MQ=255)
gttgttTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAAt > 1:551637/1‑139 (MQ=255)
gttTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCACTCGccc > 1:96065/1‑66 (MQ=255)
gttTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGccc < 2:96065/66‑1 (MQ=255)
aaCTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAg < 2:126513/111‑1 (MQ=255)
aaCTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAg > 1:126513/1‑111 (MQ=255)
cTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTc > 1:18456/1‑139 (MQ=255)
gCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATgag < 2:616532/78‑1 (MQ=255)
gCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATgag > 1:616532/1‑78 (MQ=255)
aTTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCag < 2:914934/139‑1 (MQ=255)
cGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGt < 1:318725/139‑1 (MQ=255)
aCCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGTCATg > 2:1077546/1‑139 (MQ=255)
aCCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGTCATg > 1:567767/1‑139 (MQ=255)
cAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGa < 2:915249/40‑1 (MQ=255)
cAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGa > 1:915249/1‑40 (MQ=255)
cAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGTCATGga > 2:956912/1‑139 (MQ=255)
aaGCGACCCAGAGAACCAATCGCCCATGATTTAgg < 2:908325/35‑1 (MQ=255)
aaGCGACCCAGAGAACCAATCGCCCATGATTTAgg > 1:908325/1‑35 (MQ=255)
aaGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGTCATGgaag > 2:148509/1‑139 (MQ=255)
aaGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGTCATGgaag > 1:875023/1‑139 (MQ=255)
aGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGTCATGgaaga > 1:441556/1‑139 (MQ=255)
|
AACCAGCCGGTAGAGTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGGCCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGTCATGGAAGA > NC_000913/3901631‑3901899
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A