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 |
|
A5 F28 I3 R1
|
375 |
42.1 |
2927644 |
71.4% |
2090337 |
57.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
593,454 |
T→G |
I180I (ATA→ATC) |
cusS ← |
sensory histidine kinase in two‑component regulatory system with CusR, senses copper ions |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 593,454 | 0 | T | G | 84.1%
| 197.2
/ 19.2
| 69 | I180I (ATA→ATC) | cusS | sensory histidine kinase in two‑component regulatory system with CusR, senses copper ions |
| Reads supporting (aligned to +/- strand): ref base T (0/11); new base G (0/58); total (0/69) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01 |
TAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTTATGTAATGAAGATGAAAATCGATCGAAAGCGCGATGTAGA > W3110S.gb/593393‑593494
|
tAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTTTTCATCAAATCAttt > 1:1712588/1‑62 (MQ=255)
tAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCAttt > 1:229596/1‑62 (MQ=255)
tAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCAttt > 1:65170/1‑62 (MQ=255)
tAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCAttt > 1:2230158/1‑62 (MQ=255)
tAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCAttt > 1:537214/1‑62 (MQ=255)
tAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCAttt > 1:2226817/1‑62 (MQ=255)
tAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCAttt > 1:1671526/1‑62 (MQ=255)
tAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCAttt > 1:495330/1‑62 (MQ=255)
tAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCAttt > 1:2530516/1‑62 (MQ=255)
tAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCAttt > 1:2393666/1‑62 (MQ=255)
tAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCAttt > 1:1925112/1‑62 (MQ=255)
tAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCAttt > 1:360746/1‑62 (MQ=255)
tAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCAttt > 1:2380762/1‑62 (MQ=255)
tAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCActt > 1:360302/1‑62 (MQ=255)
gATTACCGATGCTGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1943379/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGCTGAAAat < 1:2725491/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGCTGAAAat < 1:2722244/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2368961/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2290767/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2368384/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2388323/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2361816/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:23349/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2325845/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2418126/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2266647/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2495209/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2498566/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2752529/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2795190/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2830043/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2868367/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2895110/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:314551/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:372697/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:467226/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:483942/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:520677/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:53158/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:597847/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:853858/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:900978/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1674198/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1385407/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1381247/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1485407/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1496220/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1273054/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:152168/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1552643/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1229819/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1599994/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1184372/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1183317/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1647269/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1173403/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1150246/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1833396/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1888210/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1950323/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:200291/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2007545/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1113518/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2118153/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2149125/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2261948/62‑1 (MQ=255)
gATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1051799/62‑1 (MQ=255)
aTTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:22915/61‑1 (MQ=255)
aTTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1390731/61‑1 (MQ=255)
tGCGGTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:342059/53‑1 (MQ=255)
ggTCATAATAAGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:1068745/50‑1 (MQ=255)
taataaGTTTATTCATCAAATCATTGATGTAATGAAGATGAAAat < 1:2627022/45‑1 (MQ=255)
aaGTTTATTCATCAAATCATTTATGTAATGAAGATGAAAATCGATCGAAAGCGCGATGTaga < 1:1431736/62‑1 (MQ=255)
aaGTTTATTCATCAAATCATTTATGTAATGAAGATGAAAATCGATCGAAAGCGCGATGTaga < 1:1296660/62‑1 (MQ=255)
aaGTTTATTCATCAAATCATTTATGTAATGAAGATGAAAATCGATCGAAAGCGCGATGTaga < 1:1514743/62‑1 (MQ=255)
aaGTTTATTCATCAAATCATTTATGTAATGAAGATGAAAATCGATCGAAAGCGCGATGTaga < 1:484814/62‑1 (MQ=255)
aaGTTTATTCATCAAATCATTTATGTAATGAAGATGAAAATCGATCGAAAGCGCGATGTaga < 1:1554102/62‑1 (MQ=255)
aaGTTTATTCATCAAATCATTTATGTAATGAAGATGAAAATCGATCGAAAGCGCGATGTaga < 1:519554/62‑1 (MQ=255)
aaGTTTATTCATCAAATCATTTATGTAATGAAGATGAAAATCGATCGAAAGCGCGATGTaga < 1:2711332/62‑1 (MQ=255)
aaGTTTATTCATCAAATCATTTATGTAATGAAGATGAAAATCGATCGAAAGCGCGATGTaga < 1:1772964/62‑1 (MQ=255)
aaGTTTATTCATCAAATCATTTATGTAATGAAGATGAAAATCGATCGAAAGCGCGATGTaga < 1:1156684/62‑1 (MQ=255)
aaGTTTATTCATCAAATCATTTATGTAATGAAGATGAAAATCGATCGAAAGCGCGATGTaga < 1:1821045/62‑1 (MQ=255)
aaGTTTATTCATCAAATCATTTATGTAATGAAGATGAAAATCGATCGAAAGCGCGATGTaga < 1:2026870/62‑1 (MQ=255)
|
TAAAGACGATCAGGATGCTGATTACCGATGCGGTCATAATAAGTTTATTCATCAAATCATTTATGTAATGAAGATGAAAATCGATCGAAAGCGCGATGTAGA > W3110S.gb/593393‑593494
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
