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 |
899,672 |
T→C |
8.3% |
L15P (CTG→CCG) |
pspE → |
thiosulfate:cyanide sulfurtransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 899,672 | 0 | T | C | 8.3%
| 194.9
/ 9.3
| 72 | L15P (CTG→CCG) | pspE | thiosulfate:cyanide sulfurtransferase |
| Reads supporting (aligned to +/- strand): ref base T (27/39); new base C (4/2); total (31/41) |
| Fisher's exact test for biased strand distribution p-value = 3.92e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.13e-01 |
TTCATCCATAGAAGGACGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTATCAGCAAGAGCACGTT > minE/899606‑899739
|
ttcattcaTAGAAGGACGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGccc > 1:1984197/1‑71 (MQ=255)
ttCATCCATAGAAGGACGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGccc > 1:1418498/1‑71 (MQ=255)
ttCATCCATAGAAGGACGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGccc > 1:3079218/1‑71 (MQ=255)
ttCATCCATAGAAGGACGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGccc > 1:3275012/1‑71 (MQ=255)
cATCCATAGAAGGACGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGt > 1:1828104/1‑71 (MQ=255)
cATAGAAGGACGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTc < 1:3005134/71‑1 (MQ=255)
cATAGAAGGACGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTc < 1:520483/71‑1 (MQ=255)
tAGAAGGACGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTc < 1:3014207/69‑1 (MQ=255)
gAAGGACGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTcgccg < 1:49542/71‑1 (MQ=255)
gAAGGACGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTcgccg < 1:398955/71‑1 (MQ=255)
aaGGACGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTcgccg < 1:3491836/70‑1 (MQ=255)
aCGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACCGCCCGtt < 1:661903/59‑1 (MQ=255)
cGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGaa > 1:3876223/1‑70 (MQ=255)
cGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGaa > 1:3659352/1‑70 (MQ=255)
gCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACCGCCCGtttt > 1:3254336/1‑59 (MQ=255)
tACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACCGCCCGTTTTCGCCGCTGAACACTg > 1:2800224/1‑71 (MQ=255)
tACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACCGCCCGTTTTCGCCGCTGAACACTg > 1:3760399/1‑71 (MQ=255)
aCATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTg > 1:3264434/1‑70 (MQ=255)
aCATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTg > 1:61421/1‑70 (MQ=255)
tttAAAAAATGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGa < 1:3738658/71‑1 (MQ=255)
tttAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTgg < 1:2966973/66‑1 (MQ=255)
tttAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGa > 1:2384868/1‑71 (MQ=255)
tttAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGa < 1:2547826/71‑1 (MQ=255)
tAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGAt > 1:2123320/1‑66 (MQ=255)
tAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGAt > 1:282300/1‑66 (MQ=255)
tAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATg > 1:1930860/1‑71 (MQ=255)
tAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATg > 1:209792/1‑71 (MQ=255)
tAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATg > 1:3051776/1‑71 (MQ=255)
aaaaaGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGt < 1:1036882/70‑1 (MQ=255)
aaaaaGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGt < 1:1003257/70‑1 (MQ=255)
aaaaaGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGt < 1:168166/70‑1 (MQ=255)
aaaaGGCTTACTTGCTCTGTCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTTGATCGATGTTc < 1:1717593/71‑1 (MQ=255)
ttACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTc > 1:1688884/1‑70 (MQ=255)
tGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCagag > 1:3362055/1‑70 (MQ=255)
gCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTc > 1:3097274/1‑64 (MQ=255)
gCTCTGGCACTGGTGTTTTCACCGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCagag > 1:3352755/1‑69 (MQ=255)
tGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATc < 1:3894283/47‑1 (MQ=255)
tGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATc < 1:1799197/47‑1 (MQ=255)
tGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATc < 1:1803889/47‑1 (MQ=255)
tGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATc < 1:1935866/47‑1 (MQ=255)
tGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATc < 1:1280034/47‑1 (MQ=255)
tGGCACTGGTGTTTTCACCGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGt < 1:3243145/69‑1 (MQ=255)
gCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTAt < 1:486017/69‑1 (MQ=255)
gCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTAt < 1:1312394/69‑1 (MQ=255)
gCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTAt < 1:2936017/69‑1 (MQ=255)
gCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTAt < 1:2918211/69‑1 (MQ=255)
gCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTAt > 1:2877704/1‑69 (MQ=255)
gCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTAt < 1:1780944/69‑1 (MQ=255)
gCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTAt > 1:3680247/1‑69 (MQ=255)
gCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTATCa < 1:1379736/71‑1 (MQ=255)
cTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGa < 1:918905/44‑1 (MQ=255)
cTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGa < 1:1539828/44‑1 (MQ=255)
cTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGa < 1:3299230/44‑1 (MQ=255)
cTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGa < 1:2597291/44‑1 (MQ=255)
cTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGa < 1:2388946/44‑1 (MQ=255)
gtgtTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTATCAGCaa > 1:496611/1‑69 (MQ=255)
tgtTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAg < 1:3828434/59‑1 (MQ=255)
ttttCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCATAGCAGTATCAGc < 1:2605134/64‑1 (MQ=255)
ttttCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAg < 1:3365759/57‑1 (MQ=255)
tttCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTATCAGc < 1:2847840/63‑1 (MQ=255)
ttCACTGCCCGTTTTCGCCGCTGAACACTGGATCTATGTTCGTGTTCCAGAGCAGTATCAGCAAGAGCACg > 1:757099/1‑71 (MQ=255)
ttCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCgtg > 1:3905905/1‑44 (MQ=255)
ttCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCgtg > 1:3912010/1‑44 (MQ=255)
ttCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCgtg > 1:2279502/1‑44 (MQ=255)
ttCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTATCAGCAAGAGCACg > 1:440072/1‑71 (MQ=255)
tCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTATCAGCAAGAGCACg < 1:3221734/70‑1 (MQ=255)
tCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTATCAGCAAGAGCACg < 1:798017/70‑1 (MQ=255)
cACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTATCAGCAAGAGCACGtt > 1:420133/1‑71 (MQ=255)
aCTGCCCGTTTTCGCCGCTGAACACTGTATCGATGTTCGTGTTCCAGAGCAGTATCAGCAAGAGCACGtt < 1:1848761/70‑1 (MQ=255)
aCTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTATCAGCAAGAGCACGtt < 1:3885477/70‑1 (MQ=255)
aCTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTATCAGCAAGAGCACGtt < 1:2685603/70‑1 (MQ=255)
aCTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGAGTTCCAGAGCAGTATCAGCAAGAGCACGtt < 1:2317800/70‑1 (MQ=255)
|
TTCATCCATAGAAGGACGCTTACATGTTTAAAAAAGGCTTACTTGCTCTGGCACTGGTGTTTTCACTGCCCGTTTTCGCCGCTGAACACTGGATCGATGTTCGTGTTCCAGAGCAGTATCAGCAAGAGCACGTT > minE/899606‑899739
|
| 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
