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 F3 I0 R2
|
232 |
76.3 |
4135488 |
90.9% |
3759158 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,858,845 |
G→A |
14.1% |
S373S (TCG→TCA) |
amiB → |
N‑acetylmuramoyl‑l‑alanine amidase II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,858,845 | 0 | G | A | 14.1%
| 210.8
/ 22.0
| 78 | S373S (TCG→TCA) | amiB | N‑acetylmuramoyl‑l‑alanine amidase II |
| Reads supporting (aligned to +/- strand): ref base G (31/36); new base A (9/2); total (40/38) |
| Fisher's exact test for biased strand distribution p-value = 4.81e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGTTGCAACGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAACGTTTGCTGGC > minE/2858778‑2858913
|
agtTGCAACGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCg > 1:1155864/1‑71 (MQ=255)
agtTGCAACGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCg > 1:2682520/1‑71 (MQ=255)
agtTGCAACGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCg > 1:800713/1‑71 (MQ=255)
gCAACGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGata > 1:2598254/1‑71 (MQ=255)
gCAACGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGata > 1:2468821/1‑71 (MQ=255)
gCAACGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGata > 1:733120/1‑71 (MQ=255)
gCAACGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGata > 1:1497047/1‑71 (MQ=255)
aCGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATcc > 1:2678530/1‑71 (MQ=255)
cGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATcc > 1:1182850/1‑70 (MQ=255)
cGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATcc > 1:2074898/1‑70 (MQ=255)
cGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATcc > 1:1778450/1‑70 (MQ=255)
cATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCa > 1:2021490/1‑70 (MQ=255)
cATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCAt > 1:1213662/1‑71 (MQ=255)
cATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCAt > 1:3647488/1‑71 (MQ=255)
cATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCAAt > 1:3146528/1‑71 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg < 1:836616/70‑1 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg < 1:1320913/70‑1 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg < 1:3216830/70‑1 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg < 1:3240367/70‑1 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg < 1:3393629/70‑1 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg < 1:1916607/70‑1 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg < 1:3757760/70‑1 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg > 1:1359501/1‑70 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAg > 1:3746240/1‑70 (MQ=255)
aaTACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg < 1:330998/65‑1 (MQ=255)
aaTACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg < 1:792682/65‑1 (MQ=255)
cATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGa < 1:1481491/71‑1 (MQ=255)
cATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGa < 1:1321943/71‑1 (MQ=255)
cATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGa < 1:1464628/71‑1 (MQ=255)
aTAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGaa < 1:3671818/71‑1 (MQ=255)
aTAAACGTCGACCAGAACACGCCACCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCTaa < 1:3300810/71‑1 (MQ=255)
tAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTAc < 1:681690/62‑1 (MQ=255)
tAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGACGGATATCCCATCAGTAc < 1:253035/62‑1 (MQ=255)
aaCGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAAcc > 1:998486/1‑71 (MQ=255)
aaCGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAAcc > 1:3473046/1‑71 (MQ=255)
aaCGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAAcc > 1:188600/1‑71 (MQ=255)
aaCGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAAcc > 1:2172149/1‑71 (MQ=255)
aCCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGtttt < 1:801082/70‑1 (MQ=255)
aCCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGtttt < 1:2796433/70‑1 (MQ=255)
aCCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGtttt < 1:2918926/70‑1 (MQ=255)
aCCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGtttt < 1:3518120/70‑1 (MQ=255)
aCCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGtttt < 1:1990598/70‑1 (MQ=255)
aGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTAt > 1:2336354/1‑69 (MQ=255)
aaCACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg < 1:2705706/45‑1 (MQ=255)
aaCACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAg > 1:3080718/1‑70 (MQ=255)
aaCACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAg > 1:3787676/1‑70 (MQ=255)
acacGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCa > 1:2475468/1‑43 (MQ=255)
acacGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCa > 1:2412311/1‑43 (MQ=255)
acacGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg < 1:3241814/44‑1 (MQ=255)
cacGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaa > 1:1945470/1‑71 (MQ=255)
cacGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaa > 1:1896044/1‑71 (MQ=255)
cacGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaa > 1:1286454/1‑71 (MQ=255)
acGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTAc < 1:1619132/45‑1 (MQ=255)
acGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaac < 1:2720463/71‑1 (MQ=255)
acGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaac < 1:3215482/71‑1 (MQ=255)
acGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaac < 1:3571778/71‑1 (MQ=255)
acGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaac < 1:1404342/71‑1 (MQ=255)
acGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaac < 1:3591391/71‑1 (MQ=255)
acGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaac < 1:912678/71‑1 (MQ=255)
acGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaa > 1:1905619/1‑70 (MQ=255)
cGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATc > 1:375721/1‑64 (MQ=255)
cGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATc > 1:372637/1‑64 (MQ=255)
cGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaac < 1:4068856/70‑1 (MQ=255)
cGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaac < 1:2510784/70‑1 (MQ=255)
cAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTAc < 1:1334424/41‑1 (MQ=255)
ccTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGa < 1:1526178/45‑1 (MQ=255)
ttGGCGTTCTGCGCTCGCCGGATATCCCATCAGTAc < 1:2821786/36‑1 (MQ=255)
ttGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCg > 1:3795023/1‑69 (MQ=255)
gCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCgaaga < 1:3753053/70‑1 (MQ=255)
gCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCgaaga < 1:968794/70‑1 (MQ=255)
cTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAACGttt > 1:2988173/1‑71 (MQ=255)
cTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAACGttt > 1:2992894/1‑71 (MQ=255)
tGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaac < 1:2530472/53‑1 (MQ=255)
tGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAACGTTTg > 1:214385/1‑71 (MQ=255)
cgcTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAAc > 1:2401836/1‑64 (MQ=255)
cTCACCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAACGTTTGCTgg > 1:2986571/1‑71 (MQ=255)
cGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAACGTTTGCTGgc > 1:580506/1‑70 (MQ=255)
cGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAACGTTTGCTGgc > 1:3578619/1‑70 (MQ=255)
|
AGTTGCAACGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAACGTTTGCTGGC > minE/2858778‑2858913
|
| 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
