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 |
|
A72 F1 I1 R1
|
16 |
60.6 |
3810144 |
97.0% |
3695839 |
75.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,499,798 |
T→G |
T336P (ACC→CCC) |
glgC ← |
glucose‑1‑phosphate adenylyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,499,798 | 0 | T | G | 98.0%
| 197.3
/ ‑4.9
| 50 | T336P (ACC→CCC) | glgC | glucose‑1‑phosphate adenylyltransferase |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base G (20/29); total (20/30) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01 |
CGCGAGAACAGAACGGACTGCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTG > REL606/3499725‑3499869
|
cgcgAGAACAGACCGGACTGCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCa < 2:1020770/76‑1 (MQ=255)
cgcgAAAACAGAACGGACTGCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCa < 1:1339077/76‑1 (MQ=255)
gcgAGAACAGAACGGACTGCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCAt > 1:376373/1‑76 (MQ=255)
gcgAGAACAGAACGGACTGCACCACCACCGAACCAGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCAt > 2:283743/1‑76 (MQ=255)
cgAGAACAGAACGGACTGCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATc > 1:875334/1‑76 (MQ=255)
agaacagaacGGACTGCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATccc > 1:777970/1‑76 (MQ=255)
acagaacGGACTGCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTg < 1:244865/76‑1 (MQ=255)
cagaacGGACTGCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTgg > 2:1209154/1‑76 (MQ=255)
aacGGACTGCCCCACCCCCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTa < 1:200752/76‑1 (MQ=255)
aacGGACTGCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTa < 2:459250/76‑1 (MQ=255)
aacGGACTGCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTa < 1:1671177/76‑1 (MQ=255)
ggACTGCCCCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCg < 2:803014/76‑1 (MQ=255)
cTGCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAg < 1:154513/76‑1 (MQ=255)
cTGCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAg > 1:895468/1‑76 (MQ=255)
cTGCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAg > 2:620236/1‑76 (MQ=255)
tGCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGc > 1:745534/1‑76 (MQ=255)
gCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCg > 1:1894111/1‑76 (MQ=255)
caccaccacCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGa > 1:970105/1‑76 (MQ=255)
accaccaccGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGAt < 2:1249354/76‑1 (MQ=255)
cccaccGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCt < 2:1504237/75‑1 (MQ=255)
accaccGAATCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGCGGCTACCGGAGCGATccc > 1:1677857/1‑75 (MQ=255)
accaccGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCt < 2:1663146/76‑1 (MQ=255)
cccGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCa < 1:1415767/75‑1 (MQ=255)
cGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACg > 1:1751925/1‑76 (MQ=255)
cGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGGTCCTGCACGAAttt > 2:108341/1‑76 (MQ=255)
cGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAAttt < 2:1296295/76‑1 (MQ=255)
ggAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTc < 2:1340186/76‑1 (MQ=255)
gagaTCACACAACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCg < 1:1539907/76‑1 (MQ=255)
aTCACACAACCTCCCGCAACCAGTGAGTGAAAGGGCATCCCGCGGCTATCATTGAGATTCTGCACGAATTTCggcg > 2:5668/1‑73 (MQ=255)
cacacaACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGc < 2:513073/76‑1 (MQ=255)
acaACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGt > 1:1209684/1‑76 (MQ=255)
acaACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGt < 1:155122/76‑1 (MQ=255)
caACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTa > 1:1523666/1‑76 (MQ=255)
caACCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTa < 1:1546688/76‑1 (MQ=255)
accccgccgGAAACCAGTGAGTGAAGGGGCACCTCGTCGCTACCGGAGCGATCCTGCGCGAAGTTCCCTGGCGGTa < 2:227277/73‑1 (MQ=255)
aaCCGCCGGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTaa > 1:260297/1‑76 (MQ=255)
gccgGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGAt < 2:1417386/76‑1 (MQ=255)
cgGAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGGAATGATTc > 2:443019/1‑76 (MQ=255)
gAAACCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCAt > 1:1448402/1‑76 (MQ=255)
aaaCCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCAtt > 2:915066/1‑76 (MQ=255)
aCCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGt < 1:699442/76‑1 (MQ=255)
aCCAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGt < 1:699436/76‑1 (MQ=255)
cAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGTAg < 1:1028668/76‑1 (MQ=255)
cAGTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGTAg < 1:859590/76‑1 (MQ=255)
gTGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGTAGGt < 2:929936/76‑1 (MQ=255)
tGAGTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGTAGGTg < 1:130281/76‑1 (MQ=255)
gTTAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGTAGGTGcca > 1:1021458/1‑74 (MQ=255)
ttAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGaa < 1:1209154/76‑1 (MQ=255)
tAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAAt < 2:421177/76‑1 (MQ=255)
tAAGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAAt < 2:971931/76‑1 (MQ=255)
aGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTg < 1:1508944/76‑1 (MQ=255)
aGGGGCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTg < 2:590673/76‑1 (MQ=255)
|
CGCGAGAACAGAACGGACTGCACCACCACCGAACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTG > REL606/3499725‑3499869
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
