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 |
1,677,347 |
G→A |
39.1% |
T68T (ACC→ACT) |
ndk ← |
multifunctional nucleoside diphosphate kinase, apyrimidinic endonuclease, and 3'‑phosphodiesterase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,677,347 | 0 | G | A | 39.1%
| 51.8
/ 63.6
| 97 | T68T (ACC→ACT) | ndk | multifunctional nucleoside diphosphate kinase, apyrimidinic endonuclease, and 3'‑phosphodiesterase |
| Reads supporting (aligned to +/- strand): ref base G (26/33); new base A (22/16); total (48/49) |
| Fisher's exact test for biased strand distribution p-value = 2.15e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.95e-01 |
CGCGGTGACGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTCCATCGTGTTCAGCATAAAAGCCA > minE/1677289‑1677407
|
cgcgGTGACGCTGAACGGCGTTTTCACCTTCGAGCACGGAAACCACGATCGGGCCAGAGGTCATGAAt > 1:1683041/1‑68 (MQ=255)
cgcgGTGACGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAAt > 1:980430/1‑68 (MQ=255)
cgcgGTGACGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAAt > 1:2178319/1‑68 (MQ=255)
cgcgGTGACGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAAt > 1:2061394/1‑68 (MQ=255)
cgcgGTGACGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAAt > 1:2267659/1‑68 (MQ=255)
cgcgGTGACGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAAt > 1:2528038/1‑68 (MQ=255)
cgcgGTGACGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAAt > 1:2553414/1‑68 (MQ=255)
cgcgGTGACGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAAt > 1:1587276/1‑68 (MQ=255)
cgcgGTGACGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAAt > 1:3354367/1‑68 (MQ=255)
cgcgGTGACGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAAt > 1:73166/1‑68 (MQ=255)
cgcgGTGACGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAAt > 1:1083017/1‑68 (MQ=255)
cgcgGTGACGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAAt > 1:904004/1‑68 (MQ=255)
cgcgGTGACGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAAt > 1:810006/1‑68 (MQ=255)
gcgGTGACGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTc < 1:2435394/69‑1 (MQ=255)
gcgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACTATCGGGCCAGAAGTCATGAATTc < 1:3041782/69‑1 (MQ=255)
gcgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACGCTCGGGCCAGAAGTCATGAATTc < 1:3031122/69‑1 (MQ=255)
gcgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTc < 1:594060/69‑1 (MQ=255)
gcgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTc < 1:843453/69‑1 (MQ=255)
gcgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTc < 1:1289881/69‑1 (MQ=255)
gcgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTc < 1:2616573/69‑1 (MQ=255)
gcgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTc < 1:1768475/69‑1 (MQ=255)
gcgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTc < 1:2752079/69‑1 (MQ=255)
gcgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTc < 1:2344932/69‑1 (MQ=255)
gcgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTc < 1:1679948/69‑1 (MQ=255)
gcgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTc < 1:632105/69‑1 (MQ=255)
gcgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTc < 1:2086975/69‑1 (MQ=255)
gcgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTc < 1:1496863/69‑1 (MQ=255)
gcgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTc < 1:543600/69‑1 (MQ=255)
cgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTc < 1:2789974/68‑1 (MQ=255)
cgGTGACGCTGAACAGCATTTTCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTc < 1:29244/68‑1 (MQ=255)
aCGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAg > 1:2840056/1‑69 (MQ=255)
aCGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAg > 1:471833/1‑69 (MQ=255)
gCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGAc < 1:2612174/69‑1 (MQ=255)
gCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGAc < 1:1408027/69‑1 (MQ=255)
gCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGAc < 1:298218/69‑1 (MQ=255)
gCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGAc < 1:3319402/69‑1 (MQ=255)
ttttCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAg > 1:2580705/1‑66 (MQ=255)
ttttCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAAc > 1:1392250/1‑69 (MQ=255)
ttttCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAAc > 1:3228295/1‑69 (MQ=255)
ttttCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAAc > 1:1063473/1‑69 (MQ=255)
ttttCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAAc > 1:1888597/1‑69 (MQ=255)
ttttCACCTTCCAGCACGGAAACCACGATCGCGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAAc > 1:1892499/1‑69 (MQ=255)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATg > 1:1639416/1‑45 (MQ=255)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCaa > 1:1394146/1‑52 (MQ=255)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGaa > 1:3071500/1‑68 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:2694234/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:2106531/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:2965126/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:1676670/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:3340827/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:1743617/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:158730/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:1753476/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:2735909/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:2731804/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:750239/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:1178728/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:1917989/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:198181/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:1997996/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:3165620/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:944606/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATTCAACCAGACCATCAAAGAAc > 1:3171707/1‑69 (MQ=39)
ttttCACCTTCCAGCACGGAAACAACGATCGGGCCAGAAGTCATGAATACAACCAGACCATCAAAGAAc > 1:2088350/1‑69 (MQ=255)
ttCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAg > 1:1752612/1‑54 (MQ=255)
ttCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAg > 1:2957229/1‑54 (MQ=255)
ttCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAg > 1:675036/1‑54 (MQ=255)
ttCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAg > 1:1909228/1‑54 (MQ=255)
ttCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAg > 1:2159230/1‑54 (MQ=255)
ccTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGttt < 1:1578457/68‑1 (MQ=255)
ccTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGttt < 1:453677/68‑1 (MQ=255)
ccTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGttt < 1:612313/68‑1 (MQ=255)
ccTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGttt < 1:1630514/68‑1 (MQ=255)
ccTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGttt < 1:1085080/68‑1 (MQ=255)
ccTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGttt < 1:225538/68‑1 (MQ=255)
ccTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGttt < 1:3116304/68‑1 (MQ=255)
ccTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGttt < 1:2259250/68‑1 (MQ=255)
ccTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGttt < 1:1909418/68‑1 (MQ=255)
ccTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGttt < 1:279084/68‑1 (MQ=255)
ccTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGttt < 1:2977265/68‑1 (MQ=255)
cTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGttt < 1:1074139/67‑1 (MQ=255)
cTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTc < 1:1656029/69‑1 (MQ=255)
cTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTc < 1:1455161/69‑1 (MQ=255)
cTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTc < 1:3138318/69‑1 (MQ=255)
ttCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTc < 1:2531597/68‑1 (MQ=255)
cACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTCCATCgtg < 1:149183/69‑1 (MQ=255)
cACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTCCATCgtg < 1:156878/69‑1 (MQ=255)
cACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTCCATCgtg < 1:3153910/69‑1 (MQ=255)
cACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTCCATCgtg < 1:1297739/69‑1 (MQ=255)
cACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTCCATCgtg < 1:3311926/69‑1 (MQ=255)
cACGGAAACCACGATCGGGCCAGAGGTCATAAATTCAACCAGACCATCAAAGAACGGTTTTCCATCgtg < 1:716009/69‑1 (MQ=255)
aaaCCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTCCATCgtg < 1:3400386/64‑1 (MQ=255)
gggCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTCCATCGTGTTCAGCATAAAGGCCa < 1:292032/69‑1 (MQ=255)
gggCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTCCATCGTGTTCAGCATAAAAGCCa < 1:2991170/69‑1 (MQ=255)
gggCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTCCATCGTGTTCAGCATAAAAGCCa < 1:389690/69‑1 (MQ=255)
gggCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTCCATCGTGTTCAGCATAAAAGCCa < 1:796862/69‑1 (MQ=255)
gggCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTCCATCGTGTTCAGCATAAAAGCCa < 1:3017919/69‑1 (MQ=255)
|
CGCGGTGACGCTGAACGGCGTTTTCACCTTCCAGCACGGAAACCACGATCGGGCCAGAGGTCATGAATTCAACCAGACCATCAAAGAACGGTTTTCCATCGTGTTCAGCATAAAAGCCA > minE/1677289‑1677407
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
