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 |
|
A11 F256 I0 R1
|
328 |
102.7 |
5123138 |
93.4% |
4785010 |
99.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
2,361,323 |
T→A |
100% |
Q31L (CAG→CTG) |
rhmD ← |
L‑rhamnonate dehydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,361,323 | 0 | T | A | 95.0%
| 246.1
/ 3.3
| 80 | Q31L (CAG→CTG) | rhmD | L‑rhamnonate dehydratase |
| Reads supporting (aligned to +/- strand): ref base T (3/1); new base A (39/37); total (42/38) |
| Fisher's exact test for biased strand distribution p-value = 6.17e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.73e-01 |
GAACGTTAATGCCAAATGACTGGCGTGACTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCTGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGTAGGGTCATGATG > NC_000913/2361228‑2361418
|
gAACGTTAATGCCAAATGACTGGCGTGACTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTc > 2:1464122/1‑100 (MQ=255)
gTTAATGCCAAATGACTGGCGTGACTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGa < 1:1631502/100‑1 (MQ=255)
ttAATGCCAAATGACTGGCGTGACTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGAt < 2:1286164/100‑1 (MQ=255)
aTGCCAAATGACTGGCGTGACTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAAt < 1:1259208/100‑1 (MQ=255)
aTGCCAAATGACTGGCGTGACTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAAt > 1:133283/1‑100 (MQ=255)
aTGCCAAATGACTGGCGTGACTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAAt < 2:730917/100‑1 (MQ=255)
cAAATGACTGGCGTGACTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCAcc > 1:955607/1‑100 (MQ=255)
tGACTGGCGTGACTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCAccgccg < 1:1858189/100‑1 (MQ=255)
tGACTGGCGTGACTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTAGCCAGTAATTCGCCCCCAGGTCGTGATAATCAcc > 2:1725037/1‑96 (MQ=255)
cTGGCGTGACTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCa > 1:744363/1‑100 (MQ=255)
ggCGTGACTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAgc > 2:1317801/1‑100 (MQ=255)
ggCGTGACTGCTCGTAATCGCGGTATTTACTCACCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCa > 2:1122657/1‑98 (MQ=255)
gCGTGACTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAgcg > 1:1715079/1‑100 (MQ=255)
tGACTGCTCGT‑ATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCtt > 2:1292934/1‑100 (MQ=255)
cTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCtttt < 1:185000/100‑1 (MQ=255)
cTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCtttt < 1:2154841/100‑1 (MQ=255)
tGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCtttt < 1:1124141/99‑1 (MQ=255)
cTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAGTCACCGCCGCCAGCGCCTTTTTc > 1:869837/1‑99 (MQ=255)
cTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTct > 2:2390172/1‑100 (MQ=255)
cTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTct < 2:2292317/100‑1 (MQ=255)
cTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTct > 2:2408282/1‑100 (MQ=255)
cTCGTAATCGCGGTATTTACTCATCGGAGTGGCAATATGATCGTCTATCAAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTct < 2:2057622/100‑1 (MQ=255)
tCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTctg < 2:1656654/100‑1 (MQ=255)
tCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTctg < 1:1013076/100‑1 (MQ=255)
tCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTctg < 2:2017676/100‑1 (MQ=255)
cGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCATGTCGTGATAATCACCGCCGCCAGCGCCTTTTTctgc < 1:1807024/100‑1 (MQ=255)
cGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTctgc > 1:1165215/1‑100 (MQ=255)
aaTCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGt > 1:1415130/1‑100 (MQ=255)
aaTCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGt > 2:516196/1‑100 (MQ=255)
aTCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTc < 2:2392239/100‑1 (MQ=255)
cgcgGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGc < 1:377749/100‑1 (MQ=255)
gcgGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCa > 1:2321325/1‑100 (MQ=255)
cgGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCAc > 2:2196706/1‑100 (MQ=255)
ggTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCAcc < 1:470274/100‑1 (MQ=255)
aTTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGcc < 2:1057518/100‑1 (MQ=255)
aTTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGcc > 1:2431294/1‑100 (MQ=255)
aTTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGGGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGcc > 1:2431345/1‑100 (MQ=255)
tACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCTGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGt > 1:536496/1‑100 (MQ=255)
tACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAg > 2:1534272/1‑99 (MQ=255)
tACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGt < 2:235289/100‑1 (MQ=255)
tCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTaaa > 2:1660050/1‑100 (MQ=255)
aTCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAAcc < 1:73227/100‑1 (MQ=255)
gggTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGgc < 1:716229/100‑1 (MQ=255)
ggTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGgcg < 2:1819908/100‑1 (MQ=255)
ggTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGgcg > 2:891160/1‑100 (MQ=255)
gCAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGaa > 1:820286/1‑100 (MQ=255)
cAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGgcg < 2:272688/95‑1 (MQ=255)
cAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAAc < 1:2343395/100‑1 (MQ=255)
cAATATGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAAc > 2:1716262/1‑100 (MQ=255)
atatGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAAcc > 1:1394975/1‑99 (MQ=255)
tatGATCGTCTATCCAGTGATTCGCCCCCAGGTCGGGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTg < 2:708274/100‑1 (MQ=255)
tGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTg > 2:670180/1‑98 (MQ=255)
tGATCGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGtt > 2:2419505/1‑100 (MQ=255)
cGTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCCGTTTAAt > 1:319601/1‑100 (MQ=255)
gTCTATCCAGTGATTCGCCCCCTGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAAtt > 2:187276/1‑100 (MQ=255)
gTCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAAtt < 2:2544569/100‑1 (MQ=255)
tCTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAAttt > 1:482405/1‑100 (MQ=255)
cTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAAtttt < 1:2418709/100‑1 (MQ=255)
cTATCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAAtttt < 1:961253/100‑1 (MQ=255)
aTCCAGTGATTCGCCCCCTGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTg < 1:187278/100‑1 (MQ=255)
aTCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTg < 2:15904/100‑1 (MQ=255)
aTCCAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTg > 1:2185003/1‑100 (MQ=255)
tCCAGTGCTGCGCCCCCAGGTGGTGATAATCACCGCCGCCAGCGCCTGTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAAttttt < 2:2191611/98‑1 (MQ=255)
ccAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGt < 2:482400/100‑1 (MQ=255)
ccAGTGATTCGCCCCCAGGTCGTGATAATCACCGCAGGCAGCGCCTTTTGCTGCTGTCGAACCGCAAGAAAACCAGGCGCGAACCAGGCTAAttt < 2:1443576/95‑1 (MQ=255)
cAGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGTa > 2:2290557/1‑100 (MQ=255)
aGTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGTAg > 1:1424585/1‑100 (MQ=255)
aGTGATTCGCCCCCAGGTCGTGACAATCACCGCAGCCAGCGCCTTTTTCTGTTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTgg < 2:356407/97‑1 (MQ=255)
gTGATTCGCCCCCTGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGTAgg > 1:2358121/1‑100 (MQ=255)
gTGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGTAgg > 1:282954/1‑100 (MQ=255)
tGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGTAggg < 1:1165621/100‑1 (MQ=255)
tGATTCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGTAggg < 2:1390158/100‑1 (MQ=255)
tCGCCCCCAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGTAGGGTCat > 1:1520133/1‑100 (MQ=255)
cGCCCCCAGGTCGTGACAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACAGCCAGTAAACCAGGCGCCAACCTGTTTCATTTACGTTAGGGTc > 2:666317/1‑97 (MQ=255)
cccccAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGTAGGGTCatgat > 1:2126856/1‑100 (MQ=255)
cccccAGGTCGTGATAATCACCGCCGCCAGCGCCCTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGTAGGGTCatgat > 2:155592/1‑100 (MQ=255)
ccccAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCATCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGTAGGGTCatga < 2:1142140/98‑1 (MQ=255)
ccccAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGTAGGGTCatgatg > 1:173952/1‑100 (MQ=255)
ccccAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGTAGGGTCatgatg < 1:2290571/100‑1 (MQ=255)
ccccAGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGTAGGGTCatgatg > 1:735472/1‑100 (MQ=255)
|
GAACGTTAATGCCAAATGACTGGCGTGACTGCTCGTAATCGCGGTATTTACTCATCGGGGTGGCAATATGATCGTCTATCCAGTGATTCGCCCCCTGGTCGTGATAATCACCGCCGCCAGCGCCTTTTTCTGCTGTCGCACCGCCAGTAAACCAGGCGCGAACCTGTTTAATTTTTGGTAGGGTCATGATG > NC_000913/2361228‑2361418
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
