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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,493,676 |
T→C |
19.0% |
intergenic (+58/‑317) |
gyrB → / → ibpA |
DNA gyrase, subunit B/heat shock chaperone |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,493,676 | 0 | T | C | 19.0%
| 192.4
/ 33.1
| 84 | intergenic (+58/‑317) | gyrB/ibpA | DNA gyrase, subunit B/heat shock chaperone |
| Reads supporting (aligned to +/- strand): ref base T (27/41); new base C (9/7); total (36/48) |
| Fisher's exact test for biased strand distribution p-value = 2.69e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.14e-01 |
TCGATATTTAATGGCGCTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAG > minE/2493608‑2493743
|
tCGATATTTAATGGCGCTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCtt < 1:1940002/70‑1 (MQ=255)
tCGATATTTAATGGCGCTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCtt > 1:1967521/1‑70 (MQ=255)
tCGATATTTAATGGCGCTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTg < 1:4865322/71‑1 (MQ=255)
cGATATTTAATGGCGCTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCtt > 1:1070304/1‑69 (MQ=255)
gcgcTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGaa < 1:4091137/70‑1 (MQ=255)
gcgcTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGaa < 1:880253/70‑1 (MQ=255)
gcgcTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAAt < 1:227000/71‑1 (MQ=255)
cgcTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAAtt < 1:4010695/71‑1 (MQ=255)
gcTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAAtt < 1:4099130/70‑1 (MQ=255)
aCCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGt < 1:4542828/58‑1 (MQ=255)
aTGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGAt < 1:2327127/71‑1 (MQ=255)
tGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTc < 1:3570730/65‑1 (MQ=255)
tGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTc < 1:633648/65‑1 (MQ=255)
gAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTg < 1:4002687/71‑1 (MQ=255)
gAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTg < 1:4009331/71‑1 (MQ=255)
gCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTa > 1:2053843/1‑50 (MQ=255)
gCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTa > 1:2254195/1‑50 (MQ=255)
tGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTc < 1:5127138/57‑1 (MQ=255)
tGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTc < 1:3892662/57‑1 (MQ=255)
ccTGATGCGCTCCGCTTATCAGGCCTACGAAAATTCTGCAATg > 1:2928634/1‑43 (MQ=14)
ccTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTg < 1:1247188/64‑1 (MQ=255)
cTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGaa < 1:2609100/49‑1 (MQ=255)
cTGATGCGCTACGCTTATCAGGACTACGAAAATCTTGCAATGTATTGaa < 1:2547853/49‑1 (MQ=255)
tGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATg < 1:5612276/41‑1 (MQ=255)
tGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGaa < 1:4711895/48‑1 (MQ=255)
gATGCGCTACGCTTATCAGGCCTACGAAAATCTTGc < 1:3508759/36‑1 (MQ=255)
gATGCGCTACGCTTATCAGGCCTACGAAAATCTTGc < 1:3413032/36‑1 (MQ=255)
gATGCGCTACGCTTATCAGGCCTACGAAAATCTTGc < 1:1947356/36‑1 (MQ=255)
gATGCGCTACGCTTATCAGGCCTACGAAAATCTTGc < 1:5310180/36‑1 (MQ=255)
gATGCGCTACGCTTATCAGGCCTACGAAAATCTTGc < 1:5587305/36‑1 (MQ=255)
aTGCGCTCCGCTTATCAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGCCGGAt < 1:254560/70‑1 (MQ=14)
aTGCGCTACGCTTATCAGGCCTACGAAAATCTTGc > 1:880369/1‑35 (MQ=255)
aTGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTg > 1:4193514/1‑44 (MQ=255)
aTGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTg > 1:3670612/1‑44 (MQ=255)
aTGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTg > 1:1971126/1‑44 (MQ=255)
aTGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGAt < 1:4306832/70‑1 (MQ=255)
tGCGCTCCGCTTATCAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGAtt > 1:1173598/1‑56 (MQ=14)
tGCGCTCCGCTTATCAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGAtt > 1:4838595/1‑56 (MQ=14)
tGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGAtttt > 1:3730010/1‑58 (MQ=255)
tGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGAtttt > 1:3610521/1‑58 (MQ=255)
gcgcTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATaa < 1:3365579/70‑1 (MQ=255)
cgcTCCGCTTATCAGGCCTACGAAAATTCTGCAATGTa > 1:2611704/1‑38 (MQ=17)
cTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCg > 1:3665076/1‑71 (MQ=255)
cTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCg < 1:2182818/71‑1 (MQ=255)
cTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCg < 1:2305677/71‑1 (MQ=255)
tACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGaa < 1:4754536/40‑1 (MQ=255)
tACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGt > 1:3218808/1‑71 (MQ=255)
ccGCTTATCAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGc > 1:2676404/2‑58 (MQ=14)
cGCTTATCAGGCCTACGAAAATTCTGCAATTTATTGAATTTGCACGATTTTGTa < 1:983921/54‑1 (MQ=11)
cGCTTATCAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCa > 1:3049601/1‑44 (MQ=11)
cGCTTATCAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTa < 1:1981738/54‑1 (MQ=14)
gCTTATCAGGCCTACGAAAATCTTGCAATGTATTGaa < 1:1402563/37‑1 (MQ=255)
gCTTATCAGGCCTACGAAAATCTTGCAATGTATTGaa < 1:698211/37‑1 (MQ=255)
gCTTATCAGGCCTACGAAAATCTTGCAATGTATTGaa < 1:5158473/37‑1 (MQ=255)
gCTTATCAGGCCTACGAAAATCTTGCAATGTATTGaa < 1:4811310/37‑1 (MQ=255)
ttATCAGGCCTACGAAAATCTTGCAATGTATTGAAtt > 1:3932463/1‑37 (MQ=255)
aTCAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGCCGGATAAGGCGTTAAcg < 1:3397947/69‑1 (MQ=14)
cAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTg > 1:3333938/1‑45 (MQ=14)
cAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTg > 1:5193231/1‑45 (MQ=14)
aGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGCCGGATAAGGCGTTAACGCCGCa < 1:4731642/71‑1 (MQ=14)
aGGCCTACGAAAATCTTGCAATGTATTGAATTTTTATGATTTTGTAGGc > 1:4527492/1‑49 (MQ=255)
cTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGCCGGATAAGGCGtt < 1:3876547/58‑1 (MQ=11)
cTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGCCGGATAAGGCGTTAACGCCGCATcc < 1:1039345/70‑1 (MQ=11)
cTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGCCGGATAAGGCGTTAACGCCGCATCCg > 1:2040621/1‑71 (MQ=11)
cTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTa > 1:3301491/1‑42 (MQ=255)
cTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATcc < 1:5466208/70‑1 (MQ=255)
tACGAAAATCTTGCAATGTATTGAATTTTCATGAttt < 1:679215/37‑1 (MQ=255)
tACGAAAATCTTGCAATGTATTGAATTTTCATGAttt < 1:4736070/37‑1 (MQ=255)
tACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCAcgccgc < 1:4336483/65‑1 (MQ=255)
tACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCAc < 1:3905775/60‑1 (MQ=255)
cGAAAATCTTGCAATGTATTGAATTTTCATGAtttt > 1:1183731/1‑36 (MQ=255)
cGAAAATCTTGCAATGTATTGAATTTTCATGAtttt > 1:87395/1‑36 (MQ=255)
cGAAAATCTTGCAATGTATTGAATTTTCATGAtttt > 1:2569587/1‑36 (MQ=255)
cGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCAcgc > 1:4880723/1‑60 (MQ=255)
cGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCAcgc > 1:4238418/1‑60 (MQ=255)
cGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCa < 1:2333479/64‑1 (MQ=255)
cGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGc > 1:4910070/1‑70 (MQ=255)
cGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGc > 1:2170843/1‑70 (MQ=255)
cGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGc > 1:3010509/1‑70 (MQ=255)
cGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGc > 1:3104643/1‑70 (MQ=255)
aaaaTCTTGCAATGTATTGAATTTTCATGATTTTGTa > 1:2625088/1‑37 (MQ=255)
aaaaTCTTGCAATGTATTGAATTTTCATGATTTTGTa > 1:1563655/1‑37 (MQ=255)
aaaaTCTTGCAATGTATTGAATTTTCATGATTTTGTa > 1:2374485/1‑37 (MQ=255)
aaaTCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCaaga < 1:1621509/71‑1 (MQ=255)
aTCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCg < 1:3741076/48‑1 (MQ=255)
aTCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCAcgcc > 1:4676899/1‑56 (MQ=255)
cTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGtt > 1:2264722/1‑48 (MQ=255)
ttGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCaagaag > 1:2946024/1‑68 (MQ=255)
ttGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCaagaag > 1:4330642/1‑68 (MQ=255)
ttGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCaagaa > 1:462593/1‑67 (MQ=255)
|
TCGATATTTAATGGCGCTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAG > minE/2493608‑2493743
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
