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 |
2,493,694 |
T→G |
22.4% |
intergenic (+76/‑299) |
gyrB → / → ibpA |
DNA gyrase, subunit B/heat shock chaperone |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,493,694 | 0 | T | G | 22.4%
| 127.7
/ 38.0
| 67 | intergenic (+76/‑299) | gyrB/ibpA | DNA gyrase, subunit B/heat shock chaperone |
| Reads supporting (aligned to +/- strand): ref base T (28/24); new base G (7/8); total (35/32) |
| Fisher's exact test for biased strand distribution p-value = 7.71e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCTATAAGAAAAGGGCG > minE/2493630‑2493759
|
aTGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGAt < 1:2327127/71‑1 (MQ=255)
tGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTc < 1:3570730/65‑1 (MQ=255)
tGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTc < 1:633648/65‑1 (MQ=255)
gAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTg < 1:4009331/71‑1 (MQ=255)
gAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTg < 1:4002687/71‑1 (MQ=255)
tGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTc < 1:5127138/57‑1 (MQ=255)
tGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTc < 1:3892662/57‑1 (MQ=255)
ccTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTg < 1:1247188/64‑1 (MQ=255)
aTGCGCTCCGCTTATCAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGCCGGAt < 1:254560/70‑1 (MQ=14)
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)
cTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCg < 1:2305677/71‑1 (MQ=255)
cTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCg < 1:2182818/71‑1 (MQ=255)
cTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCg > 1:3665076/1‑71 (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)
aTCAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGCCGGATAAGGCGTTAAcg < 1:3397947/69‑1 (MQ=14)
cAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTg > 1:5193231/1‑45 (MQ=14)
cAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTg > 1:3333938/1‑45 (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 > 1:87395/1‑36 (MQ=255)
cGAAAATCTTGCAATGTATTGAATTTTCATGAtttt > 1:1183731/1‑36 (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 > 1:3010509/1‑70 (MQ=255)
cGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGc > 1:4910070/1‑70 (MQ=255)
cGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGc > 1:2170843/1‑70 (MQ=255)
cGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGc > 1:3104643/1‑70 (MQ=255)
aaaaTCTTGCAATGTATTGAATTTTCATGATTTTGTa > 1:2374485/1‑37 (MQ=255)
aaaaTCTTGCAATGTATTGAATTTTCATGATTTTGTa > 1:1563655/1‑37 (MQ=255)
aaaaTCTTGCAATGTATTGAATTTTCATGATTTTGTa > 1:2625088/1‑37 (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 > 1:4330642/1‑68 (MQ=255)
ttGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCaagaag > 1:2946024/1‑68 (MQ=255)
ttGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCaagaa > 1:462593/1‑67 (MQ=255)
cAATGTATTGAATTTGCATGATTTTGTAGGCCGGATAAGGCGTTCAc < 1:3526024/47‑1 (MQ=255)
tGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCTATAAGaa < 1:3060236/71‑1 (MQ=255)
tATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCTATAAGaa > 1:3563597/1‑69 (MQ=255)
ttGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCAc < 1:3786309/40‑1 (MQ=40)
ttGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCTATAAGaaa < 1:244967/68‑1 (MQ=255)
ttGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCTATAAGAAAAgg > 1:2694043/1‑71 (MQ=255)
gAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCTATAAGaaa > 1:426694/1‑66 (MQ=255)
gAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCTATAAGAAAAgg > 1:3792377/1‑69 (MQ=255)
gAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCTATAAGAAAAgg > 1:3051503/1‑69 (MQ=255)
aaTTTTCATGATTTTGTAGGCCGGATAAGGCGTTCAc < 1:2969355/37‑1 (MQ=40)
ttCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCTATAAGaa > 1:331819/1‑60 (MQ=255)
ttCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCTATAAGAAAAGGGCg > 1:4111671/1‑67 (MQ=255)
ttCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCTATAAGAAAAGGGCg > 1:513090/1‑67 (MQ=255)
|
ATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCTATAAGAAAAGGGCG > minE/2493630‑2493759
|
| 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
