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 |
|
A82 F1 I1 R1
|
16 |
52.8 |
3323890 |
97.1% |
3227497 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
2,511,637 |
A→G |
intergenic (+101/‑438) |
acrD → / → yffB |
aminoglycoside/multidrug efflux system/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 2,511,637 | 0 | A | G | 95.2%
| 239.4
/ 1.0
| 62 | intergenic (+101/‑438) | acrD/yffB | aminoglycoside/multidrug efflux system/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (3/0); new base G (37/22); total (40/22) |
| Fisher's exact test for biased strand distribution p-value = 5.46e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
GTCGCCTTTTTCAACTTTCCGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTACTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATAACAACCTCTCTTAT > REL606/2511564‑2511709
|
gtCGCCTTTTTCAACTTTCCGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAAttgct > 1:473771/1‑76 (MQ=255)
tCGCGTTGTTCAACTTTCCGATTAACAACCTGCTCAGCGGGTTCTTGCTGTTTGTCCTTTGTCTCAGGAAttgctt < 2:956992/76‑1 (MQ=255)
tCGCCTTTTTCAACTTTCCGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAAttgctt > 1:1626004/1‑76 (MQ=255)
cGCCTTTTTCAACTTTCCGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAAttgctta < 1:1185922/76‑1 (MQ=255)
cGCCTTTTTCAACTTTCCGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAAttactta > 1:621064/1‑76 (MQ=255)
ccTTTTTCAACTTTCCGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACg > 2:830815/1‑76 (MQ=255)
tttttCAACTTTCCGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGaa < 2:1344522/76‑1 (MQ=255)
ttttCAACTTTCCGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAg > 2:1184946/1‑76 (MQ=255)
ttttCAACTTTCCGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAg > 2:1213641/1‑76 (MQ=255)
tttCAACTTTCCGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGc < 1:656185/76‑1 (MQ=255)
tttCAACTTTCCGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGc < 2:1611277/76‑1 (MQ=255)
tCAACTTTCCGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCAt < 1:314335/76‑1 (MQ=255)
tCAACTTTCCGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCAt > 2:998414/1‑76 (MQ=255)
aaCTTTCCGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATaa > 1:1210638/1‑76 (MQ=255)
ccGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGa < 1:1543212/76‑1 (MQ=255)
cGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGAt > 2:1114969/1‑76 (MQ=255)
ttAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATaaa < 1:203657/76‑1 (MQ=255)
ttAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATaaa > 1:206934/1‑76 (MQ=255)
aaGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGt > 2:609854/1‑76 (MQ=255)
aGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTc > 1:1024770/1‑76 (MQ=255)
aCCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCttt < 1:211126/76‑1 (MQ=255)
aCCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCttt > 1:258287/1‑76 (MQ=255)
ccTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTc > 1:1060707/1‑76 (MQ=255)
cTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTcc < 1:1506881/76‑1 (MQ=255)
tGCTCAGCGGGTTCTTGCTGTTTGTACTATGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCa < 2:66716/76‑1 (MQ=255)
cTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGt > 2:379132/1‑76 (MQ=255)
tCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTACTTACGAAGCATAACTTCGATAAAGTCTTTCCAGtt > 2:808705/1‑76 (MQ=255)
aGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTcc > 2:482397/1‑76 (MQ=255)
aGCGGGTTCTTGCTGTTTGTACTTGGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTcc < 2:246727/76‑1 (MQ=255)
cGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTcccc > 2:1615579/1‑76 (MQ=255)
gggTTCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCa > 1:739179/1‑76 (MQ=255)
ttCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGtt > 1:137482/1‑76 (MQ=255)
ttCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGtt > 1:1394073/1‑76 (MQ=255)
tCTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTc > 2:885562/1‑76 (MQ=255)
cTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCa > 2:809556/1‑76 (MQ=255)
cTTGCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCa > 2:809571/1‑76 (MQ=255)
gCTGTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGt > 1:1141134/1‑76 (MQ=255)
tGTTTGTACTTGGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTc > 1:289867/1‑76 (MQ=255)
gTTTGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCa > 2:1205589/1‑76 (MQ=255)
tttGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCaa > 1:1624840/1‑76 (MQ=255)
ttGTACTTTGTCTCAGGAATTGCTTCCGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAAt > 2:1642994/1‑76 (MQ=255)
ttGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAAt > 1:932220/1‑76 (MQ=255)
ttGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAAt > 2:106349/1‑76 (MQ=255)
tGTACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATc > 1:306572/1‑76 (MQ=255)
tACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCAt > 1:638504/1‑76 (MQ=255)
tACTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCAt > 1:1350716/1‑76 (MQ=255)
aCTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATa > 1:1602057/1‑76 (MQ=255)
aCTTTGTCTCAGGAATTACTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATa > 2:1301236/1‑76 (MQ=255)
cTTTGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATaa < 1:1575759/76‑1 (MQ=255)
tttGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATaac < 1:83426/76‑1 (MQ=255)
tttGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATaac < 1:758409/76‑1 (MQ=255)
tttGTCTCAGGAATTACTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATaac > 1:760795/1‑76 (MQ=255)
ttGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATaaca < 1:1616942/76‑1 (MQ=255)
tGTCTCAGGAATTGCTTGCGAAGCATGACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATaacaa < 2:1183228/76‑1 (MQ=255)
tGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATaacaa > 1:998392/1‑76 (MQ=255)
tGTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATaacaa > 2:423809/1‑76 (MQ=255)
gTCTCAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATaacaac > 2:626065/1‑76 (MQ=255)
ctcAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATAACAACct < 1:1092191/76‑1 (MQ=255)
ctcAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATAACAACct < 2:515489/76‑1 (MQ=255)
ctcAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATAACAACct < 1:896745/76‑1 (MQ=255)
cAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATAACAACctct > 1:488001/1‑76 (MQ=255)
cAGGAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATAACAACctct > 1:487995/1‑76 (MQ=255)
ggAATTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATAACAACctctct < 1:487286/76‑1 (MQ=255)
aTTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATAACAACCTCTCtt > 2:294258/1‑74 (MQ=255)
aTTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATAACAACCTCTCtt < 1:294258/74‑1 (MQ=255)
aTTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATAACAACCTCTCTtat < 2:698721/76‑1 (MQ=255)
aTTGCTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATAACAACCTCTCTtat < 2:874275/76‑1 (MQ=255)
|
GTCGCCTTTTTCAACTTTCCGATTAAGAACCTGCTCAGCGGGTTCTTGCTGTTTGTACTTTGTCTCAGGAATTACTTACGAAGCATAACTTCGATAAAGTCTTTCCAGTTCCCCAGTTCACGTTCAATCATAACAACCTCTCTTAT > REL606/2511564‑2511709
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
