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 |
|
A1 F28 I1 R2
|
328 |
63.0 |
4687567 |
98.0% |
4593815 |
65.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,893,179 |
A→C |
I110L (ATT→CTT) |
ygcP → |
predicted anti‑terminator regulatory protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,893,179 | 0 | A | C | 98.4%
| 211.0
/ ‑5.2
| 62 | I110L (ATT→CTT) | ygcP | predicted anti‑terminator regulatory protein |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base C (31/30); total (32/30) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01 |
AGTACCAAAGCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTATTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCGGATTGTATTGA > W3110S.gb/2893113‑2893246
|
aGTACCAAAGCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCttgt > 1:218168/1‑71 (MQ=255)
tACCAAAGCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCttgtt > 1:902712/1‑70 (MQ=255)
ccAAAGCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGAt > 1:2101925/1‑71 (MQ=255)
ccAAAGCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGAt > 1:2162641/1‑71 (MQ=255)
ccAAAGCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGAt > 1:2902625/1‑71 (MQ=255)
ccAAAGCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGAt > 1:447992/1‑71 (MQ=255)
ccAAAGCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGAt > 1:1622028/1‑71 (MQ=255)
ccAAAGCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTATTGTTGAt > 1:4608995/1‑71 (MQ=255)
aaaGCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTc < 1:3929996/71‑1 (MQ=255)
aaaGCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTc < 1:2590397/71‑1 (MQ=255)
aaGCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCa < 1:1270504/71‑1 (MQ=255)
gCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAAt > 1:3893913/1‑71 (MQ=255)
gCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAAt > 1:2671138/1‑71 (MQ=255)
gCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAAt > 1:257924/1‑71 (MQ=255)
tGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGttt < 1:4210412/71‑1 (MQ=255)
tGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGttt > 1:1185900/1‑71 (MQ=255)
gTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGttt > 1:3558421/1‑70 (MQ=255)
ttGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCaa > 1:1321932/1‑61 (MQ=255)
ttGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAAtt > 1:2998189/1‑63 (MQ=255)
ttGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTca > 1:2444982/1‑71 (MQ=255)
tGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTca > 1:2869320/1‑70 (MQ=255)
aaaGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCacaa < 1:1107148/71‑1 (MQ=255)
aaGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCacaac < 1:649923/71‑1 (MQ=255)
aGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCacaaca > 1:1202466/1‑71 (MQ=255)
aGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCacaaca > 1:3638626/1‑71 (MQ=255)
aGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCacaaca > 1:825339/1‑71 (MQ=255)
cGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACAtt < 1:832199/71‑1 (MQ=255)
cGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACAtt < 1:1929773/71‑1 (MQ=255)
cGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACAtt < 1:2598107/71‑1 (MQ=255)
cGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACAtt < 1:1099224/71‑1 (MQ=255)
cAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCttgttc < 1:940002/45‑2 (MQ=255)
cAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCacaa < 1:1980280/64‑1 (MQ=255)
cAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCacaa < 1:1438530/64‑1 (MQ=255)
agCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTc > 1:435460/1‑45 (MQ=255)
ggAAGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAg < 1:1588650/71‑1 (MQ=255)
aGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTGAATTTCGttt > 1:3680222/1‑49 (MQ=255)
aGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGttt > 1:4473031/1‑49 (MQ=255)
aGGTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTg > 1:2765768/1‑71 (MQ=255)
ggTTTTTTCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTgc > 1:1625672/1‑71 (MQ=255)
tttttCTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCacaa > 1:1867482/1‑50 (MQ=255)
cTGTATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCg < 1:1829868/70‑1 (MQ=255)
tATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTcaca < 1:396735/41‑1 (MQ=255)
tATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTcaca < 1:2627017/41‑1 (MQ=255)
tATTCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGaa < 1:2130044/69‑1 (MQ=255)
ttCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACATTg < 1:1448616/45‑1 (MQ=255)
ttCATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACATTg < 1:637587/45‑1 (MQ=255)
cATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCGGa > 1:2977291/1‑71 (MQ=255)
cATCGCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCGGa > 1:2518561/1‑71 (MQ=255)
cGCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCGGATTg > 1:2438182/1‑71 (MQ=255)
gCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCGGATTg < 1:2978350/70‑1 (MQ=255)
gCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCGGATTg < 1:1878601/70‑1 (MQ=255)
gCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCGGATTg < 1:1883911/70‑1 (MQ=255)
gCCTGTTTCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCGGATTg > 1:733391/1‑70 (MQ=255)
gCCTGTTTCTTGTT‑ATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCGGATTGTa > 1:1893537/1‑71 (MQ=255)
cTGTTTCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCGGATTg < 1:821607/68‑1 (MQ=255)
tGTTTCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCGGATTg < 1:3543812/67‑1 (MQ=255)
gTTTCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCGGATTGTAtt > 1:2209795/1‑70 (MQ=255)
tttCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGa < 1:2822559/55‑1 (MQ=255)
tttCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCg < 1:2914138/60‑1 (MQ=255)
tttCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCg < 1:2276543/60‑1 (MQ=255)
tttCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCGGATTg < 1:400369/65‑1 (MQ=255)
tttCTTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCGGATTGTATTga < 1:3213817/71‑1 (MQ=255)
|
AGTACCAAAGCCTCAATGTTGAAAGCGGCAAGAGCGGAAGGTTTTTTCTGTATTCATCGCCTGTTTATTGTTGATTCAATTTCGTTTCACAACATTGATAAGCAAGTTGCGCAATCGAATCCGGATTGTATTGA > W3110S.gb/2893113‑2893246
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
