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 |
|
A56 F1 I1 R1
|
16 |
62.6 |
4005459 |
97.2% |
3893306 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,145,726 |
G→A |
intergenic (+57/‑138) |
dnaG → / → rpoD |
DNA primase/RNA polymerase sigma factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,145,726 | 0 | G | A | 98.6%
| 272.3
/ ‑3.7
| 70 | intergenic (+57/‑138) | dnaG/rpoD | DNA primase/RNA polymerase sigma factor |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (35/34); total (35/35) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.99e-01 |
AGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGATTTCAGCGTTA > REL606/3145653‑3145797
|
aGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGc < 1:1391721/76‑1 (MQ=255)
gCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCa < 1:1157538/76‑1 (MQ=255)
tGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAagcagc < 2:1923226/76‑1 (MQ=255)
tGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAagcagc > 1:1491501/1‑76 (MQ=255)
tGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAagcagc > 2:507840/1‑76 (MQ=255)
tGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAagcagc < 2:1497246/76‑1 (MQ=255)
ggCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCg < 1:768230/76‑1 (MQ=255)
gAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCa > 2:1819643/1‑76 (MQ=255)
gAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCa > 1:1431403/1‑76 (MQ=255)
aaaaaGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCaa > 1:404367/1‑76 (MQ=255)
aaaGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAat < 2:1822995/76‑1 (MQ=255)
aaaGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAat < 2:1670279/76‑1 (MQ=255)
aatGATTTACCGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAatat < 2:1312351/74‑1 (MQ=255)
aGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAatat < 2:408065/76‑1 (MQ=255)
aGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAatat < 2:291321/76‑1 (MQ=255)
aGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAatat > 1:1399278/1‑76 (MQ=255)
tGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAatatat > 2:1438819/1‑76 (MQ=255)
gATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAAtatata < 1:1946400/76‑1 (MQ=255)
gATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAAtatata < 1:1403852/76‑1 (MQ=255)
aTTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATaa > 1:762769/1‑76 (MQ=255)
aTTTAACGGCGTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATaa < 2:1284531/76‑1 (MQ=255)
tAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTa < 2:859781/76‑1 (MQ=255)
cGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGc > 2:662278/1‑76 (MQ=255)
cTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCt > 2:253649/1‑76 (MQ=255)
tAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCg > 2:1529073/1‑76 (MQ=255)
tAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCg > 1:58758/1‑76 (MQ=255)
tAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCg < 1:307081/76‑1 (MQ=255)
tAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCg < 1:1926282/76‑1 (MQ=255)
aaGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGt > 1:231872/1‑76 (MQ=255)
aaGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGt < 1:1078657/76‑1 (MQ=255)
aGTGCGGAAGCGCGACCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTa < 2:1625436/76‑1 (MQ=255)
gCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAAtt < 2:489881/76‑1 (MQ=255)
gCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAAtt > 2:1421616/1‑76 (MQ=255)
gCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAAtt > 2:1615975/1‑76 (MQ=255)
ccGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTa > 2:1795789/1‑76 (MQ=255)
cGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTAt > 2:1545208/1‑76 (MQ=255)
cGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTAt > 2:613184/1‑76 (MQ=255)
cGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTAt < 2:863915/76‑1 (MQ=255)
gAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATc < 1:1958362/76‑1 (MQ=255)
agagCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGt > 2:1875650/1‑76 (MQ=255)
gagCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGtt < 2:1130525/76‑1 (MQ=255)
gagCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGtt > 2:1941060/1‑76 (MQ=255)
gagCGATCGGGAAG‑CCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTg > 2:926621/1‑76 (MQ=255)
agcgagcgGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTg < 2:1333345/76‑1 (MQ=255)
agCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTg < 1:507936/76‑1 (MQ=255)
agCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATAATCGTTg > 2:1662276/1‑76 (MQ=255)
gCGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTgg > 2:703616/1‑76 (MQ=255)
cGATCGGGAAGCCCCCGACAGCCGCTCTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGc > 2:923001/1‑76 (MQ=255)
cGATCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGc > 2:163998/1‑76 (MQ=255)
aTCGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCgg < 1:682777/76‑1 (MQ=255)
cGGGAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTa < 2:1059935/76‑1 (MQ=255)
gggAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTaa < 2:759865/76‑1 (MQ=255)
ggaaaGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTaa < 1:38171/73‑1 (MQ=255)
gAAGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAaac < 1:1818826/76‑1 (MQ=255)
aaGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAaaca < 2:312703/76‑1 (MQ=255)
aaGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAaaca > 2:603446/1‑76 (MQ=255)
aGCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAaacaa < 1:438685/76‑1 (MQ=255)
gCCCCCGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAaacaac > 2:1017928/1‑76 (MQ=255)
ccccGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCg < 2:1631286/76‑1 (MQ=255)
cccGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGt > 2:81542/1‑76 (MQ=255)
ccGACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGtt > 1:802087/1‑76 (MQ=255)
gACAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTgg > 2:1985956/1‑76 (MQ=255)
aCAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGa < 2:582544/76‑1 (MQ=255)
cAGCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGAt > 2:1589110/1‑76 (MQ=255)
gCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGAttt > 1:1188410/1‑76 (MQ=255)
gCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGAttt < 2:372991/76‑1 (MQ=255)
gCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGAttt < 2:628199/76‑1 (MQ=255)
gCCGCACTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGAttt < 2:14929/76‑1 (MQ=255)
aCTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGATTTCAGCg > 2:556896/1‑76 (MQ=255)
aCTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGATTTCAGCg < 2:435824/76‑1 (MQ=255)
aCTGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGATTTCAGCg > 1:1739609/1‑76 (MQ=255)
tGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGATTTCAGCGtt > 2:366122/1‑76 (MQ=255)
tGAGAAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGATTTCAGCGtt > 2:1308255/1‑76 (MQ=255)
gagaAGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGATTTCAGCGTTa > 1:737483/1‑76 (MQ=255)
|
AGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGATTTCAGCGTTA > REL606/3145653‑3145797
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
