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 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
813,910 |
A→G |
44.6% |
C60C (TGT→TGC) |
prsA ← |
phosphoribosylpyrophosphate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 813,910 | 0 | A | G | 44.6%
| 29.1
/ 131.9
| 96 | C60C (TGT→TGC) | prsA | phosphoribosylpyrophosphate synthase |
| Reads supporting (aligned to +/- strand): ref base A (23/30); new base G (22/20); total (46/50) |
| Fisher's exact test for biased strand distribution p-value = 4.14e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCGGAAGCACGACGCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTGTACGCTGACTTCG > minE/813845‑813976
|
gCGGAAGCACGACGCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGt > 1:86423/1‑71 (MQ=255)
gCGGAAGCACGACGCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGt > 1:1544091/1‑71 (MQ=255)
cGGAAGCACGACGCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTg < 1:1780505/71‑1 (MQ=255)
gAAGCACGACGCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAg > 1:417040/1‑67 (MQ=255)
cgacgCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGgat > 1:406555/1‑71 (MQ=255)
cgacgCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGgat > 1:2527988/1‑71 (MQ=255)
cATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAata < 1:2004841/71‑1 (MQ=255)
cATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAata < 1:119781/71‑1 (MQ=255)
cATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAata < 1:2272481/71‑1 (MQ=255)
aTCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAatat > 1:2936586/1‑71 (MQ=255)
aTCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAatat > 1:3777274/1‑71 (MQ=255)
aTCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGAACAAGTGGACTGGATGATGAAAata > 1:2616961/1‑70 (MQ=255)
tCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGcaca < 1:4220634/47‑1 (MQ=255)
tCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAat < 1:3156896/68‑1 (MQ=255)
tCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAat < 1:2595125/68‑1 (MQ=255)
tCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAat < 1:468838/68‑1 (MQ=255)
tCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAat < 1:3416829/68‑1 (MQ=255)
aaCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAatat > 1:1564033/1‑68 (MQ=255)
aaCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAatat > 1:393256/1‑68 (MQ=255)
aaCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAatat > 1:3976732/1‑68 (MQ=255)
aaCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATcac > 1:402864/1‑71 (MQ=255)
aaCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATcac < 1:399061/71‑1 (MQ=255)
aaCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATcac < 1:1124986/71‑1 (MQ=255)
aaCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATcac < 1:3968658/71‑1 (MQ=255)
aaCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATcac < 1:1757355/71‑1 (MQ=255)
aaCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATcac < 1:4089036/71‑1 (MQ=255)
gccATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGa > 1:3868085/2‑50 (MQ=255)
aCCATAACGACTAATTCCATCAGGTTGTCGTTAGTATGGGCACAAGTGGa > 1:2104473/1‑50 (MQ=255)
aCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATcac < 1:2941083/70‑1 (MQ=255)
aCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGa > 1:2354567/1‑50 (MQ=255)
aCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGa > 1:410215/1‑50 (MQ=255)
aCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGa > 1:1327469/1‑50 (MQ=255)
aCCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATcacc < 1:1076530/71‑1 (MQ=255)
ccATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAg < 1:733618/45‑1 (MQ=255)
ccATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAg < 1:1367325/45‑1 (MQ=255)
aTAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGgatgat < 1:3974164/56‑1 (MQ=255)
aTAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGgatgat < 1:2749691/56‑1 (MQ=255)
aTAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGgatgat < 1:1312225/56‑1 (MQ=255)
tAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATcacc < 1:3717022/67‑1 (MQ=255)
tAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATcacc < 1:4118794/67‑1 (MQ=255)
tAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATcacc < 1:3779264/67‑1 (MQ=255)
tAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATcacc < 1:3814907/67‑1 (MQ=255)
tAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTg < 1:3320635/44‑1 (MQ=255)
tAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTg < 1:3039227/44‑1 (MQ=255)
aaCTACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACaact > 1:2589001/1‑40 (MQ=38)
aaCGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACcgc > 1:4173636/1‑71 (MQ=255)
aaCGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACcgc > 1:4053965/1‑71 (MQ=255)
aaCGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACcgc > 1:1317147/1‑71 (MQ=255)
aCGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATCACCACcgcg > 1:2045954/1‑71 (MQ=255)
aCGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATCACCACcgcg > 1:1466184/1‑71 (MQ=255)
aCGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATCACCACcgcg > 1:2998924/1‑71 (MQ=255)
cGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAat < 1:495557/58‑1 (MQ=255)
cGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAat < 1:2849373/58‑1 (MQ=255)
cGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAat < 1:2509283/58‑1 (MQ=255)
gACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACTAGTGGACTGGATGATGAAAATATCACCACCGCGTa < 1:511134/71‑1 (MQ=255)
aCTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTAc < 1:3475351/71‑1 (MQ=255)
aCTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTAc < 1:1909907/71‑1 (MQ=255)
aCTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTAc < 1:814788/71‑1 (MQ=255)
cTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTAc < 1:3480359/70‑1 (MQ=255)
aTTCCATCAGGTTGTCGTTAGTAGGGGCTCAAGTGGACTGGATGATGAAAATATcac > 1:3582207/1‑57 (MQ=255)
aTTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATcac > 1:1841352/1‑57 (MQ=255)
aTTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATcac > 1:3519183/1‑57 (MQ=255)
aTTCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATcac > 1:4170487/1‑57 (MQ=255)
aTTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAatat > 1:3585028/1‑54 (MQ=255)
aTTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAatat > 1:3358509/1‑54 (MQ=255)
ttCCATCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATCACCACCGCGTACAtttt < 1:1190188/71‑1 (MQ=255)
ccATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTc > 1:619970/1‑70 (MQ=255)
ccATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCa > 1:1695248/1‑71 (MQ=255)
ccATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCa > 1:933634/1‑71 (MQ=255)
ccATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCa > 1:2382057/1‑71 (MQ=255)
aTCAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCAtt < 1:2190274/71‑1 (MQ=255)
aTCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCAtt < 1:763115/71‑1 (MQ=255)
tCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTa < 1:1254562/71‑1 (MQ=255)
cAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTaa > 1:2257584/1‑71 (MQ=255)
cAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTaa > 1:1475816/1‑71 (MQ=255)
cAGGTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTaa > 1:3783108/1‑71 (MQ=255)
gTTGTCGTTAGTAGGTGCGCAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCAtt < 1:3345220/66‑1 (MQ=255)
gTTGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCAtt < 1:580893/66‑1 (MQ=255)
gTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAAtt < 1:3048996/70‑1 (MQ=255)
ttGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGaa < 1:3020795/38‑1 (MQ=255)
tGTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATca > 1:2338917/1‑44 (MQ=255)
tGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTa > 1:1434028/1‑54 (MQ=255)
tGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTa > 1:3198212/1‑54 (MQ=255)
gTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGaaaa > 1:650343/1‑38 (MQ=255)
gTCGTTAGTAGGGGCGCAAGTGGACTGGATGATGaaaa > 1:91978/1‑38 (MQ=255)
gTTAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTGTACGc > 1:3429919/1‑71 (MQ=255)
gTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCAtt < 1:2925083/60‑1 (MQ=255)
ttAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAAt < 1:1708762/62‑1 (MQ=255)
ttAGTAGGGGCGCAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAAt < 1:4218416/62‑1 (MQ=255)
tagtatGGGCGCAAGTTGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAAt < 1:1555202/61‑1 (MQ=255)
ggggCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTGTACGCTGACtt < 1:476097/70‑1 (MQ=255)
ggggCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTGTACGCTGACtt < 1:579497/70‑1 (MQ=255)
gggCGCAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAAt < 1:2349778/55‑1 (MQ=255)
gggCGCAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAAt < 1:932136/55‑1 (MQ=255)
ggCACAAGTGGCCTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTGTACGCTGACTTc > 1:2516398/1‑69 (MQ=255)
ggCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTGTACGCTGACTTc > 1:3340508/1‑69 (MQ=255)
ggCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTGTACGCTGACTTCg > 1:3779225/1‑70 (MQ=255)
|
GCGGAAGCACGACGCAGGGCATCAACCATAACGACTAATTCCATCAGGTTGTCGTTAGTAGGGGCACAAGTGGACTGGATGATGAAAATATCACCACCGCGTACATTTTCATTAATTTGTACGCTGACTTCG > minE/813845‑813976
|
| 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
