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 |
|
A2 F1 I1 R1
|
748 |
32.0 |
1685426 |
92.6% |
1560704 |
103.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,462,897 |
(T)7→8 |
intergenic (‑237/+157) |
nrdD ← / ← treC |
anaerobic ribonucleoside‑triphosphate reductase/trehalose‑6‑P hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,462,890 | 1 | . | T | 100.0%
| 113.2
/ NA
| 36 | intergenic (‑230/+164) | nrdD/treC | anaerobic ribonucleoside‑triphosphate reductase/trehalose‑6‑P hydrolase |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base T (18/18); total (18/18) |
TTTCGTGGGGAGCTGTAGTAGCAATTATAGTCGATTAATACAACATATTGGGTTGGGACGCATTTTAAAGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGC‑TTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGGCGCTACAGCGATATGTAAATTTTTTAATGAATTTGCTGGTTGAAAAATCAACAAAAACAACATACTGACAGACA > NC_000913/4462785‑4463012
|
tttCGTGGGGAGCTGTAGTAGCAATTATAGTCGATTAATACAACATATTGGGTTGGGACGCATTTTAAAGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCaga < 2:155217/139‑1 (MQ=255)
gggAGCTGTAGTAGCAATTATAGTCGATTAATACAACATATTGGGTTGGGACGCATTTTAAAGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACg > 2:637025/1‑139 (MQ=255)
gCTGTAGTAGCAATTGTAGTCGATTAATACAACAAATTGGGTTGGGACGCATTTTAAAGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATg > 2:225917/1‑139 (MQ=255)
agtagCAATTATAGTCGATTAATACAACATATTGGGTTGGGACGCATTTTAAAGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACggg < 2:137502/139‑1 (MQ=255)
gtagCAATTATAGTCGATTAATACAACATATTGGGTTGGGACGCATTTTAAAGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGgc < 1:664008/139‑1 (MQ=255)
tagCAATTATAGTCGATTAATACAACATATTGGGTTGGGACGCATTTTAAAGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGgcg < 1:637025/139‑1 (MQ=255)
tgggttgggACGCATTTTAAAGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGgcg < 1:449159/109‑1 (MQ=255)
tgggttgggACGCATTTTAAAGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGgcg > 2:449159/1‑109 (MQ=255)
tgggttgggACGCATTTTAAAGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGGCGCTACAGCGATATGTAAATTTTTTAATGAAt > 1:477146/1‑139 (MQ=255)
gttgggACGCATTTTAAAGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGGCGCTACAGCGATATGTAAATTTTTTAATGAATTTg > 1:447256/1‑139 (MQ=255)
tgggACGCATTTTAAAGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACggg > 1:37283/1‑102 (MQ=255)
tgggACGCATTTTAAAGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACggg < 2:37283/102‑1 (MQ=255)
ggACGCATTTTAAAGTCTATATATAGTGCATTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTCAAAAGCAGAGCGTACGGATGACGGGCGCTACAGCGATATGTAAATTTTTTAATGAATTTGCTgg > 1:560664/1‑139 (MQ=255)
cATTTTAAAGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGGCGCTACAGCGATATGTAAATTTTTTAATGAATTTGCTGGTTGaa > 2:477324/1‑139 (MQ=255)
aGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGGCGCTACAGCGATATGTAAATTTTTTAATGAATTTGCTGGTTGAAAAATcaac < 1:477324/139‑1 (MQ=255)
tCTATATATAGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGGCGCTACAGCGATATGTAAATTTTTTAATGAATTTGCTGGTTGAAAAATcaacaa < 2:161554/139‑1 (MQ=255)
aGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTa < 2:465760/65‑1 (MQ=255)
aGTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTa > 1:465760/1‑65 (MQ=255)
gTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTa < 2:325575/64‑1 (MQ=255)
gTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTa > 1:325575/1‑64 (MQ=255)
gTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACggg < 2:281445/75‑1 (MQ=255)
gTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACggg > 1:281445/1‑75 (MQ=255)
gTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGGCGCTACAGCg < 2:836749/85‑1 (MQ=255)
gTGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGGCGCTACAGCg > 1:836749/1‑85 (MQ=255)
tGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCa < 1:496352/56‑1 (MQ=255)
tGCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCa > 2:496352/1‑56 (MQ=255)
gCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCg > 1:81162/1‑60 (MQ=255)
gCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCg < 2:81162/60‑1 (MQ=255)
gCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGGCGCTACAGc > 1:615025/1‑82 (MQ=255)
gCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGGCGCTACAGc < 2:615025/82‑1 (MQ=255)
gCTTTGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGGCGCTACAGCGATATGTAAATTTTTTAATGAATTTGCTGGTTGAAAAATCAACAAAAACAACATACt > 2:477476/1‑139 (MQ=255)
tttGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCa > 2:305603/1‑53 (MQ=255)
tttGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCa < 1:305603/53‑1 (MQ=255)
tGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTAc > 2:328134/1‑59 (MQ=255)
tGCATCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTAc < 1:328134/59‑1 (MQ=255)
tCAAGGATGTTTGAGCTTTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGGCGCTACAGCGATATGTAAATTTTTTAATGAATTTGCTGGTTGAAAAATCAACAAAAACAACATACTgacagaca < 1:477476/139‑1 (MQ=255)
|
TTTCGTGGGGAGCTGTAGTAGCAATTATAGTCGATTAATACAACATATTGGGTTGGGACGCATTTTAAAGTCTATATATAGTGCTTTGCATCAAGGATGTTTGAGC‑TTTTTTTGATGTAGCTCAAAGTAAAAAGCAGAGCGTACGGATGACGGGCGCTACAGCGATATGTAAATTTTTTAATGAATTTGCTGGTTGAAAAATCAACAAAAACAACATACTGACAGACA > NC_000913/4462785‑4463012
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
