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 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,858,845 |
G→A |
41.3% |
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 | 41.3%
| 27.4
/ 52.4
| 46 | S373S (TCG→TCA) | amiB | N‑acetylmuramoyl‑l‑alanine amidase II |
| Reads supporting (aligned to +/- strand): ref base G (11/16); new base A (13/6); total (24/22) |
| Fisher's exact test for biased strand distribution p-value = 7.97e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.27e-01 |
TGCAACGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAACGTTTG > minE/2858781‑2858908
|
tGCAACGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTGTGCGCTCACCGGa > 1:954966/1‑70 (MQ=255)
tGCAACGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGa > 1:1202243/1‑70 (MQ=255)
gCAACGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGat < 1:1561071/70‑1 (MQ=255)
gCAACGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGat > 1:1981058/1‑70 (MQ=255)
gCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCa < 1:1076638/71‑1 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg > 1:1864218/1‑70 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg > 1:1802239/1‑70 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg > 1:520384/1‑70 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg > 1:561757/1‑70 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAg > 1:66982/1‑70 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCa > 1:1646402/1‑69 (MQ=255)
ggCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAg > 1:744797/1‑70 (MQ=255)
cGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTa > 1:1201533/1‑70 (MQ=255)
aaTACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTAc > 1:1884994/1‑68 (MQ=255)
aTACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGt > 1:1351605/1‑71 (MQ=255)
tACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTc < 1:1347180/71‑1 (MQ=255)
tACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTc < 1:979270/71‑1 (MQ=255)
cATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCg > 1:317605/1‑70 (MQ=255)
aTAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGa > 1:138731/1‑70 (MQ=255)
cGTCGACCAGAACTCGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCgg < 1:1998378/71‑1 (MQ=255)
aCCAGAACACGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTa < 1:1885388/71‑1 (MQ=255)
ccAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTAt < 1:2133374/71‑1 (MQ=255)
cAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGttt < 1:533690/67‑1 (MQ=255)
cGCCAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaac > 1:1050580/1‑70 (MQ=255)
cAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaacaa > 1:1850455/1‑69 (MQ=255)
cAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaacaa > 1:2067186/1‑69 (MQ=255)
cAGCCTTGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaacaa > 1:1863975/1‑69 (MQ=255)
cAGCCTTGGCGTTCTGCGATCGCCGGATATCCCATCAGTACTGGTCGAAACCGGtttt < 1:1847386/58‑1 (MQ=255)
gCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGc > 1:1878460/1‑71 (MQ=255)
ccTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaac < 1:1367561/64‑1 (MQ=255)
ccTTGGCGTTCTGCCCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCg < 1:263296/71‑1 (MQ=255)
ttGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTa > 1:520942/1‑54 (MQ=255)
ttGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCa > 1:242295/1‑57 (MQ=255)
ttGGCGTTCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCg > 1:1650947/1‑69 (MQ=255)
cGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAAc < 1:575642/71‑1 (MQ=255)
ttCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGtttt < 1:2066847/47‑1 (MQ=255)
ttCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAAc < 1:1878937/69‑1 (MQ=255)
ttCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAACGt < 1:1207565/71‑1 (MQ=255)
ttCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCgaa > 1:1802954/1‑65 (MQ=255)
ttCTGCGCTCACCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAACGt < 1:208781/71‑1 (MQ=255)
ttCTGCGATCGCCGGATATCCCATCAGTACTGGTCGAAACCGGtttt < 1:2175467/47‑1 (MQ=255)
tGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGtttt < 1:1872838/44‑1 (MQ=255)
tGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGtttt < 1:1227403/44‑1 (MQ=255)
cgcTCACCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAACGttt < 1:8537/68‑1 (MQ=255)
cgcTCACCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAACGTTTg < 1:47774/69‑1 (MQ=255)
cgcTCACCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAACGTTTg < 1:45217/69‑1 (MQ=255)
tagCCGGTTATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGcaac < 1:2200547/46‑1 (MQ=39)
|
TGCAACGCATTGGCGAAATACATAAACGTCGACCAGAACACGCCAGCCTTGGCGTTCTGCGCTCGCCGGATATCCCATCAGTACTGGTCGAAACCGGTTTTATCAGCAACAACAGCGAAGAACGTTTG > minE/2858781‑2858908
|
| 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
