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 |
2,223,383 |
T→C |
35.1% |
F165F (TTT→TTC) |
panF → |
pantothenate:sodium symporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,223,383 | 0 | T | C | 35.1%
| 32.5
/ 29.5
| 54 | F165F (TTT→TTC) | panF | pantothenate:sodium symporter |
| Reads supporting (aligned to +/- strand): ref base T (15/20); new base C (8/11); total (23/31) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTTATCGGCGGTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTGGTATCAGCATTGCGTTATATACCGCCTTTGGTGGCTTTCGCGCCAGCGTGCTGAAC > minE/2223315‑2223440
|
tttATCGGCGGTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGAttttt > 1:2640657/1‑69 (MQ=255)
tATCGGCGGTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTgg > 1:83460/1‑69 (MQ=255)
tATCGGCGGTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTgg > 1:2007219/1‑69 (MQ=255)
tATCGGCGGTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTgg > 1:2668449/1‑69 (MQ=255)
tATCGGCGGTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTgg > 1:1833303/1‑69 (MQ=255)
tATCGGCGGTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTgg > 1:3148200/1‑69 (MQ=255)
tATCGGCGGTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTgg > 1:1351253/1‑69 (MQ=255)
tATCGGCGGTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTgg > 1:767905/1‑69 (MQ=255)
ggTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTCTGAAACCGGGCTGCTGATTTTTGGTATCAGc < 1:402326/69‑1 (MQ=255)
ggTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTGGTATCAGc < 1:368979/69‑1 (MQ=255)
ggTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTGGTATCAGc < 1:1909241/69‑1 (MQ=255)
ggTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTGGTATCAGc < 1:1824287/69‑1 (MQ=255)
ggTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTGGTATCAGc < 1:3125819/69‑1 (MQ=255)
ggTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTGGTATCAGc < 1:1636142/69‑1 (MQ=255)
tGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTGGTATCAGCAt < 1:356599/69‑1 (MQ=255)
tGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTGGTATCAGCAt < 1:2623227/69‑1 (MQ=255)
gcgcgcCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTGGTATCAGCAtt > 1:2154299/1‑69 (MQ=255)
gcCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTGGTATCAGCATTGCGt < 1:1812441/69‑1 (MQ=255)
gctgGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTGGTATCAGCAt < 1:1112710/60‑1 (MQ=255)
gAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTGGTATCAGc < 1:1005968/54‑1 (MQ=255)
gAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTGGTATCAGCATTGCGTTATATAcc > 1:3342216/1‑69 (MQ=255)
cggcggGTATTCCTTATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCTTtg < 1:3416784/69‑1 (MQ=255)
cggcggGTATTCCTTATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCTTtg < 1:540768/69‑1 (MQ=255)
cggcggGTATTCCTTATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCTTtg < 1:376917/69‑1 (MQ=255)
cggcggGTATTCCTTATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCTTtg < 1:2487215/69‑1 (MQ=255)
cggcggGTATTCCTTATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCTTtg < 1:2554256/69‑1 (MQ=255)
cggcggGTATTCCTTATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCTTtg < 1:1049931/69‑1 (MQ=255)
cggcggGTATTCCTTATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCTTtg < 1:116908/69‑1 (MQ=255)
cggcggGTATTCCTTATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCTTtg < 1:1744701/69‑1 (MQ=255)
cggcggGTATTCCTTATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCTTtg < 1:1289121/69‑1 (MQ=255)
cggcggGTATTCCTTATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCTTtg < 1:1356164/69‑1 (MQ=255)
cggcggGTATTCCTTATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCTTtg < 1:1624875/69‑1 (MQ=255)
gggTATTCCTTATGAAACCGGGCTGCTGATTTTTGGTATCAGCATTGCGTTATATACCGCCTTtggtgg > 1:1054765/1‑69 (MQ=255)
ccTTATGAAACCGGGCTGCTGATTTTTGGTATCAGCATTGCGTTATATACCGCCTTTGGTGGCTTTcgc > 1:798873/1‑69 (MQ=255)
ccTTATGAAACCGGGCTGCTGATTTTTGGTATCAGCATTGCGTTATATACCGCCTTTGGTGGCTTTcgc > 1:2000214/1‑69 (MQ=255)
ccTTATGAAACCGGGCTGCTGATTTTTGGTATCAGCATTGCGTTATATACCGCCTTTGGTGGCTTTcgc > 1:1942267/1‑69 (MQ=255)
ccTTATGAAACCGGGCTGCTGATTTTTGGTATCAGCATTGCGTTATATACCGCCTTTGGTGGCTTTcgc > 1:3249285/1‑69 (MQ=255)
ccTTATGAAACCGGGCTGCTGATTTTTGGTATCAGCATTGCGTTATATACCGCCTTTGGTGGCTTTcgc > 1:150459/1‑69 (MQ=255)
cTTATGAAACCGGGCTGCTGATTTTTGGTATCAGc < 1:2538542/35‑1 (MQ=255)
tATGAAGCCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCttt > 1:436529/1‑54 (MQ=255)
tATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCttt > 1:169972/1‑54 (MQ=255)
tATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCttt > 1:127454/1‑54 (MQ=255)
tATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCttt > 1:2409259/1‑54 (MQ=255)
tATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCttt > 1:1816637/1‑54 (MQ=255)
tATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCttt > 1:2860052/1‑54 (MQ=255)
tATGAAACCGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATACCGCCttt > 1:2337765/1‑54 (MQ=255)
tATGAAAACGGGCTGCTGATTTTCGGTATCAGCATTGCGTTGTATAc > 1:797007/1‑47 (MQ=38)
gAAACCGGGCTGCTGATTTTTGGTATCAGCATTGCGTTATATACCGCCTTTGTTGGCTTTCGCGCCAg < 1:3178958/68‑1 (MQ=255)
gAAACCGGGCTGCTGATTTTTGGTATCAGCATTGCGTTATATACCGCCTTTGGTGGCTTTCGCGCCAg < 1:673971/68‑1 (MQ=255)
gggCTGCTGATTTTTGGTATCAGCATTGCGTTATATACCGCCTTTGGTGGCTTTCGCGCCAGCGTGCTg < 1:3241884/69‑1 (MQ=255)
gggCTGCTGATTTTTGGTATCAGCATTGCGTTATATACCGCCTTTGGTGGCTTTCGCGCCAGCGTGCTg < 1:553877/69‑1 (MQ=255)
ggCTGCTGATTTTTGGTATCAGCATTGCGTTATATACCGCCTTTGGTGGCTTTCGCGCCAGCGTGCTg < 1:563470/68‑1 (MQ=255)
ggCTGCTGATTTTTGGTATCAGCATTGCGTTATATACCGCCTTTGGTGGCTTTCGCGCCAGCGTGCTg < 1:2266077/68‑1 (MQ=255)
ctgctgATTTTTGGTATCAGCATTGCGTTATATACCGCCTTTGGTGGCTTTCGCGCCAGCGTGCTGAAc < 1:3037812/69‑1 (MQ=255)
ctgctgATTTTTGGTATCAGCATTGCGTTATATACCGCCTTTGGTGGCTTTCGCGCCAGCGTGCTGAAc < 1:2165985/69‑1 (MQ=255)
|
TTTATCGGCGGTGCGCGCCTGCTGGAAACCGCGGCGGGTATTCCTTATGAAACCGGGCTGCTGATTTTTGGTATCAGCATTGCGTTATATACCGCCTTTGGTGGCTTTCGCGCCAGCGTGCTGAAC > minE/2223315‑2223440
|
| 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
