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 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
722,240 |
G→C |
54.4% |
A461A (GCC→GCG) |
rne ← |
fused ribonucleaseE endoribonuclease and scaffold for formation of degradosome |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 722,240 | 0 | G | C | 54.4%
| 14.5
/ 89.2
| 79 | A461A (GCC→GCG) | rne | fused ribonucleaseE endoribonuclease and scaffold for formation of degradosome |
| Reads supporting (aligned to +/- strand): ref base G (10/26); new base C (10/33); total (20/59) |
| Fisher's exact test for biased strand distribution p-value = 7.96e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.33e-01 |
GTGCGGGGTTTCCATCTGATCGTTTGGCACAATTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCGATTGGCACAGGAACA > minE/722174‑722297
|
gTGCGGGGTTTCCATCTGATCGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGc < 1:972465/69‑1 (MQ=255)
gTGCGGGGTTTCCATCTGATCGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGc < 1:1894990/69‑1 (MQ=255)
gTGCGGGGTTTCCATCTGATCGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGc < 1:1774638/69‑1 (MQ=255)
gTGCGGGGTTTCCATCTGATCGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGc < 1:2405669/69‑1 (MQ=255)
gTGCGGGGTTTCCATCTGATCGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGc < 1:1726251/69‑1 (MQ=255)
gTGCGGGGTTTCCATCTGATCGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGc < 1:2409776/69‑1 (MQ=255)
gTGCGGGGTTTCCATCTGATCGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGc < 1:2561557/69‑1 (MQ=255)
gTGCGGGGTTTCCATCTGATCGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGc < 1:2821992/69‑1 (MQ=255)
gTGCGGGGTTTCCATCTGATCGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGc < 1:1329330/69‑1 (MQ=255)
gTGCGGGGTTTCCATCTGATCGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGc < 1:1305203/69‑1 (MQ=255)
gTGCGGGGTTTCCATCTGATCGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGc < 1:45486/69‑1 (MQ=255)
gTGCGGGGTTTCCATCTGATCGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGc < 1:508168/69‑1 (MQ=255)
gTGCGGGGTTTCCATCTGATCGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGc < 1:511943/69‑1 (MQ=255)
gTGCGGGGTTTCCATCTGATCGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGc < 1:900354/69‑1 (MQ=255)
gTTTCCATCTGATCGTTTGGCACAATTACACAGCGCACACCGTCCTGACGAGTTTCAATGTCATTTAc > 1:1011095/1‑68 (MQ=255)
gTTTCCATCTGATCGTTTGGCACAATTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTAc > 1:1347115/1‑68 (MQ=255)
ttCCATCTGATCGTTTGGCACAATTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCAttt > 1:1846899/1‑64 (MQ=255)
ttCCATCTGATCGTTTGGCACAATTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTAc > 1:1781288/1‑66 (MQ=255)
ttCCATCTGATCGTTTGGCACAATTAAAAATCGCACACCGTCCTGACGAGTTTCAATGGCATTTAc > 1:3383236/1‑66 (MQ=255)
cATCTGATCGTTTGGCACAATTACAGAGCGCTCACCGTCCTGACGAGTTTCAATGGCATTTACCGCAg < 1:2279040/68‑1 (MQ=255)
cATCTGATCGTTTGGCACAATTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAg < 1:2282984/68‑1 (MQ=255)
cTGATCGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGc < 1:2514841/54‑1 (MQ=255)
cGTTTGTCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:1170325/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:2954475/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:2620300/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:2581874/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:639392/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:547251/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:1634571/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:2719732/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:1475876/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:237748/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:311350/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:3172087/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:221766/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:2165726/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:2161832/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:1221047/65‑1 (MQ=255)
cGTTTGGCACAATCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:440671/65‑1 (MQ=255)
aaTTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTcagcag < 1:389123/69‑1 (MQ=255)
aaTTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTcagcag < 1:3144497/69‑1 (MQ=255)
aaTTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTcagcag < 1:1079069/69‑1 (MQ=255)
aaTTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTcagcag < 1:2755908/69‑1 (MQ=255)
aaTTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTcagcag < 1:3404927/69‑1 (MQ=255)
aaTTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTcagcag < 1:667697/69‑1 (MQ=255)
aaTTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTcagcag < 1:740117/69‑1 (MQ=255)
aaTTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTcagcag < 1:90120/69‑1 (MQ=255)
aaTTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTcagcag < 1:96829/69‑1 (MQ=255)
aaTTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTcagcag < 1:1740668/69‑1 (MQ=255)
aaTTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTcagcag < 1:18053/69‑1 (MQ=255)
aaTTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTcagcag < 1:2249626/69‑1 (MQ=255)
aaTTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTcagcag < 1:2234293/69‑1 (MQ=255)
aaTCACACAGCGTACGCCGTCCTGACGAGTTTCAATCGCATTTACCGCAGAACGt < 1:1075336/55‑1 (MQ=255)
gcgcACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGc < 1:3281205/69‑1 (MQ=255)
gcgcACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGc < 1:2080034/69‑1 (MQ=255)
ccGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCGATTgg > 1:2702380/1‑68 (MQ=255)
ccGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCGATTgg > 1:3423573/1‑68 (MQ=255)
ccGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCGATTgg > 1:2046239/1‑68 (MQ=255)
ccGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCGATTgg > 1:1837388/1‑68 (MQ=255)
ccGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCGATTgg > 1:2388916/1‑68 (MQ=255)
cTGACGAGTTTCAATCGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCAATTGGcaca > 1:1040218/1‑67 (MQ=255)
cTGACGAGTTTCAATCGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCAATTGGcaca > 1:2951886/1‑67 (MQ=255)
cTGACGAGTTTCAATCGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCAATTGGcaca > 1:1933456/1‑67 (MQ=255)
cTGACGAGTTTCAATCGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCAATTGGcaca > 1:3348646/1‑67 (MQ=255)
cTGACGAGTTTCAATCGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCAATTGGcaca > 1:3326801/1‑67 (MQ=255)
cTGACGAGTTTCAATCGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCAATTGGcaca > 1:1733691/1‑67 (MQ=255)
cTGACGAGTTTCAATCGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCAATTGGcaca > 1:1659288/1‑67 (MQ=255)
cTGACGAGTTTCAATCGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCAATTGGcaca > 1:1516256/1‑67 (MQ=255)
cTGACGAGTTTCAATCGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCAATTGGcaca > 1:2555809/1‑67 (MQ=255)
cTGACGAGTTTCAATCGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCAATTGGcac > 1:2905721/1‑66 (MQ=255)
gAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCGATTGGCACAGGAACa < 1:2328721/68‑1 (MQ=255)
aTGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCg < 1:2625737/45‑1 (MQ=255)
aTGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCg < 1:9493/45‑1 (MQ=255)
aTGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCg < 1:25147/45‑1 (MQ=255)
aTGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCg < 1:432990/45‑1 (MQ=255)
aTGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCg < 1:539871/45‑1 (MQ=255)
aTGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCg < 1:536036/45‑1 (MQ=255)
aTGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCg < 1:522085/45‑1 (MQ=255)
aTGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCg < 1:1311136/45‑1 (MQ=255)
|
GTGCGGGGTTTCCATCTGATCGTTTGGCACAATTACACAGCGCACACCGTCCTGACGAGTTTCAATGGCATTTACCGCAGAACGTTTTTCATTCAGCAGGTAAGAAGCGATTGGCACAGGAACA > minE/722174‑722297
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
