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 |
|
A85 F1 I1 R1
|
15 |
51.9 |
3515760 |
95.5% |
3357550 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,108,495 |
T→G |
E3A (GAA→GCA) |
metJ ← |
transcriptional repressor protein MetJ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,108,495 | 0 | T | G | 96.8%
| 256.9
/ ‑1.2
| 63 | E3A (GAA→GCA) | metJ | transcriptional repressor protein MetJ |
| Reads supporting (aligned to +/- strand): ref base T (2/0); new base G (35/26); total (37/26) |
| Fisher's exact test for biased strand distribution p-value = 5.07e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.43e-01 |
AACCGTAATCTTTTTGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATTCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGAGACCAGACCACACAGTTGATGTGGGTACTGA > REL606/4108422‑4108565
|
aaCCGTAATCTTTTTGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCa > 2:997057/1‑76 (MQ=255)
aaCCGTAATCTTTTTGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCa > 2:469033/1‑76 (MQ=255)
aaCCGTAATCTTTTTGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCa > 2:469022/1‑76 (MQ=255)
aaCCGTAATCTTTTTGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCa < 1:489574/76‑1 (MQ=255)
aCCGTAATCTTTTTGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAg > 1:1047480/1‑76 (MQ=255)
aCCGTAATCTTTTTGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAg > 1:1093357/1‑76 (MQ=255)
cGTAATCTTTTTGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGcc < 1:107650/76‑1 (MQ=255)
aaTCTTTTTGTCTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATg < 1:603677/76‑1 (MQ=255)
aaTCTTTTTGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATg > 1:26419/1‑76 (MQ=255)
aaTCTTTTTGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATg > 1:1717577/1‑76 (MQ=255)
aaTCTTTTTGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATg < 1:1648424/76‑1 (MQ=255)
aaTCTTTTTGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATg < 1:1624418/76‑1 (MQ=255)
aTCTTTTTGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATga < 1:1245658/76‑1 (MQ=255)
aTCTTTTTGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATga < 1:63630/76‑1 (MQ=255)
tttttGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGAt < 1:514876/76‑1 (MQ=255)
tttttGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGAt < 1:869877/76‑1 (MQ=255)
tttttGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGAt < 1:1606566/76‑1 (MQ=255)
ttttGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATa < 1:90512/76‑1 (MQ=255)
ttttGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATa < 1:550073/76‑1 (MQ=255)
tttGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATAc > 1:293712/1‑76 (MQ=255)
tGACTTTTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACtt < 2:3623/76‑1 (MQ=255)
tGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACtt < 1:1621345/76‑1 (MQ=255)
cTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAAt < 2:1434825/76‑1 (MQ=255)
tGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATcc > 1:1572549/1‑76 (MQ=255)
gTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCct > 2:1254314/1‑76 (MQ=255)
ttCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCctc > 1:251769/1‑76 (MQ=255)
ttCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCctc > 2:1177463/1‑76 (MQ=255)
cACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCtt > 1:1363289/1‑76 (MQ=255)
cACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCtt > 2:228305/1‑76 (MQ=255)
cACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCtt > 1:1226759/1‑76 (MQ=255)
cACTCTTCTTGCAGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCctctc > 2:460068/1‑75 (MQ=255)
cttcttGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTc > 2:857376/1‑76 (MQ=255)
cttGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAAt > 1:1163274/1‑76 (MQ=255)
ttGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATa > 2:826/1‑76 (MQ=255)
ttGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATa < 1:1411301/76‑1 (MQ=255)
ttGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAAGCCTCTTCGTCAATa > 2:1657600/1‑76 (MQ=255)
tGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATaa > 2:1639444/1‑76 (MQ=255)
gCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATaaa > 2:1163529/1‑76 (MQ=255)
gCCGTGCTCAGCGAATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTAAATCCTCCTCACCaaaaaa > 1:534312/1‑76 (MQ=255)
ccGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTTAATAAAt < 1:1144723/76‑1 (MQ=255)
gTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTg < 2:1411538/76‑1 (MQ=255)
gTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTg > 1:1738211/1‑76 (MQ=255)
gTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTg > 2:1652530/1‑76 (MQ=255)
gTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTNCGTCAATAAATTg < 1:1190900/76‑1 (MQ=255)
gCTCAGCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTgag > 2:704178/1‑76 (MQ=255)
cAGCGTATGGGCTGATATATTCGCCGCTACATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGagacc > 2:839066/1‑76 (MQ=255)
gCGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGagaccag < 1:835373/76‑1 (MQ=255)
cGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGagaccaga > 2:1496725/1‑76 (MQ=255)
cGTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGagaccaga > 2:456702/1‑76 (MQ=255)
gTATGGGCTGATATATTCGCCGCTCCGTGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGagaccagac > 1:478177/1‑76 (MQ=255)
gTATGGGCTGATATATTCGCCGCTCCATTCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGagaccagac > 2:784258/1‑76 (MQ=255)
gTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGagaccagcc > 2:314863/1‑74 (MQ=255)
gTATGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGagaccagac < 2:594227/76‑1 (MQ=255)
tGGGCTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATCAATTGAGACCAGACcac > 1:787401/1‑76 (MQ=255)
cTGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGAGACCAGACCACACAg < 1:1279691/76‑1 (MQ=255)
tGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGAGACCAGACCACACAGt > 1:530254/1‑76 (MQ=255)
tGATATATTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGAGACCAGACCACACAGt > 1:1591030/1‑76 (MQ=255)
gATATATACGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGAGACCAGAACACACAgat > 2:775468/1‑74 (MQ=255)
atatatTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGAGACCAGCCCACACAGTTg < 2:28739/76‑1 (MQ=255)
atatatTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGAGACCAGACCACACAGTTg < 1:1242379/76‑1 (MQ=255)
atatTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGAGACCAGACCACACAGTTGAt > 1:1674321/1‑76 (MQ=255)
tatTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGAGACCAGACCACACAGTTGAtg > 1:37674/1‑76 (MQ=255)
atTCGCCGCTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGAGACCAGACCACACAGTTGAtgt < 1:1163529/76‑1 (MQ=255)
cgccgcTCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGAGACCAGACCACACAGTTGATGTggg < 2:55890/76‑1 (MQ=255)
gcTCCATTCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGAGACCAGACCACACAGTTGATGTGGGTACt > 2:24903/1‑76 (MQ=255)
tCCATGCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGAGACCAGACCACACAGTTGATGTGGGTACTGa > 1:31578/1‑76 (MQ=255)
|
AACCGTAATCTTTTTGACTTGTTCACTCTTCTTGCCGTGCTCAGCGTATGGGCTGATATATTCGCCGCTCCATTCAGCCATGAGATACTTAATCCTCTTCGTCAATAAATTGAGACCAGACCACACAGTTGATGTGGGTACTGA > REL606/4108422‑4108565
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
