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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,154,666 |
A→G |
100% |
I23V (ATT→GTT) |
yhfA → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,154,666 | 0 | A | G | 100.0%
| 163.7
/ NA
| 46 | I23V (ATT→GTT) | yhfA | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (15/31); total (15/31) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AAAATGCAAGCGCGAGTGAAGTGGGTCGAAGGGTTAACTTTTCTGGGCGAATCCGCCTCTGGTCATCAGATTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGTT > W3110S.gb/4154597‑4154721
|
aaaaTGCAAGCGCGAGTGAAGTGGGTCGAAGGGTTAACTTTTCTGGGCGAATCCGCCTCTGGTCATCAGa < 1:1925670/70‑1 (MQ=255)
aaTGCAAGCGCGAGTGAAGTGGGTCGAAGGGTTAACTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGttt > 1:3636491/1‑71 (MQ=255)
aTGCAAGCGCGAGTGAAGTGGGTCGAAGGGTTAACTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGtttt < 1:2536468/71‑1 (MQ=255)
aTGCAAGCGCGAGTGAAGTGGGTCGAAGGGTTAACTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGtttt < 1:3386074/71‑1 (MQ=255)
gAAGGGTTAACTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAg > 1:93305/1‑64 (MQ=255)
gAAGGGTTAACTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAg > 1:2356978/1‑64 (MQ=255)
ttAACTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCAc > 1:839841/1‑70 (MQ=255)
ttAACTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCAc > 1:161194/1‑70 (MQ=255)
ttAACTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCAc > 1:3523917/1‑70 (MQ=255)
ttAACTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCAc > 1:3456856/1‑70 (MQ=255)
ttAACTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCAc > 1:1354152/1‑70 (MQ=255)
aaCTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCAc > 1:2189749/1‑68 (MQ=255)
aaCTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCAc > 1:796479/1‑68 (MQ=255)
cTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATg < 1:3305704/41‑1 (MQ=255)
cTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATg < 1:3128005/41‑1 (MQ=255)
cTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATg < 1:3125703/41‑1 (MQ=255)
cTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATg < 1:3074659/41‑1 (MQ=255)
cTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATg < 1:3062002/41‑1 (MQ=255)
cTTTTCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATg < 1:1823636/41‑1 (MQ=255)
ttCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTcc < 1:1550856/70‑1 (MQ=255)
ttCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTcc < 1:3144892/70‑1 (MQ=255)
ttCTGGGCGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTcc < 1:3217202/70‑1 (MQ=255)
ggCGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGa < 1:3723972/71‑1 (MQ=255)
gCGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCTATGGaa < 1:475366/71‑1 (MQ=255)
cGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATgg > 1:3654885/1‑68 (MQ=255)
cGAATCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGaaa > 1:783978/1‑71 (MQ=255)
tCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGgt < 1:927399/71‑1 (MQ=255)
tCCGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGgt < 1:2923752/71‑1 (MQ=255)
tCCGCCACTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGgt < 1:3010318/71‑1 (MQ=255)
cGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGgtgt > 1:1390089/1‑71 (MQ=255)
cGCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGgtgt > 1:1557614/1‑71 (MQ=255)
gCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGtt < 1:2191409/71‑1 (MQ=255)
gCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGtt < 1:680527/71‑1 (MQ=255)
gCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGtt < 1:2461547/71‑1 (MQ=255)
gCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGtt < 1:436160/71‑1 (MQ=255)
gCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGtt > 1:3174511/1‑71 (MQ=255)
gCCTCTGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGtt < 1:3200208/71‑1 (MQ=255)
ctctGGTCATCAGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGtt < 1:2723637/69‑1 (MQ=255)
tcatcaGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGtt < 1:4423/63‑1 (MQ=255)
tcatcaGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGtt < 1:3216291/63‑1 (MQ=255)
tcatcaGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGtt < 1:532748/63‑1 (MQ=255)
tcatcaGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGtt < 1:2049194/63‑1 (MQ=255)
tcatcaGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGtt < 1:1404042/63‑1 (MQ=255)
tcatcaGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGtt < 1:2947289/63‑1 (MQ=255)
tcaGGTTTTAATGGACGGCAACTCAGGCTATAAAGCACCAAGTCCGATGGAAATGGTGtt < 1:2375014/60‑1 (MQ=255)
tcaGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGtt < 1:2732804/60‑1 (MQ=255)
caGGTTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGtt < 1:442291/59‑1 (MQ=255)
|
AAAATGCAAGCGCGAGTGAAGTGGGTCGAAGGGTTAACTTTTCTGGGCGAATCCGCCTCTGGTCATCAGATTTTAATGGACGGCAACTCAGGCGATAAAGCACCAAGTCCGATGGAAATGGTGTT > W3110S.gb/4154597‑4154721
|
| 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
