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 |
|
A1 F3 I0 R2
|
260 |
44.3 |
3360226 |
90.5% |
3041004 |
64.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,885,984 |
C→T |
32.9% |
intergenic (‑109/+250) |
ygcB ← / ← cysH |
conserved hypothetical protein, member of DEAD box family/3'‑phosphoadenosine 5'‑phosphosulfate reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,885,984 | 0 | C | T | 32.9%
| 104.7
/ 74.4
| 85 | intergenic (‑109/+250) | ygcB/cysH | conserved hypothetical protein, member of DEAD box family/3'‑phosphoadenosine 5'‑phosphosulfate reductase |
| Reads supporting (aligned to +/- strand): ref base C (38/19); new base T (19/9); total (57/28) |
| 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 |
TTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCG > W3110S.gb/2885925‑2886049
|
ttttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGAc > 1:1413120/1‑71 (MQ=255)
ttttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGAc > 1:3072572/1‑71 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGAc > 1:982163/1‑70 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGAc > 1:1413259/1‑70 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGAc > 1:1804901/1‑70 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGAc > 1:1362117/1‑70 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGAc > 1:2344483/1‑70 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGAc > 1:2804047/1‑70 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGAc > 1:1204351/1‑70 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGAc > 1:3211146/1‑70 (MQ=255)
aTAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACt < 1:2915508/57‑1 (MQ=255)
aTAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACt < 1:2726968/57‑1 (MQ=255)
aTAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACt < 1:1132510/57‑1 (MQ=255)
aTAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACt < 1:1864687/57‑1 (MQ=255)
aaaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGAc > 1:2839916/1‑54 (MQ=255)
aaaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTaa > 1:1004437/1‑57 (MQ=255)
aaaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTaa > 1:647627/1‑57 (MQ=255)
aaaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTaa > 1:665385/1‑57 (MQ=255)
aaaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTaa > 1:2371136/1‑57 (MQ=255)
aaaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTaa > 1:1638037/1‑57 (MQ=255)
aaaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTaa > 1:1507601/1‑57 (MQ=255)
aaaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTaa > 1:1431882/1‑57 (MQ=255)
aaaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTaa > 1:1231448/1‑57 (MQ=255)
aaaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTaa > 1:1106334/1‑57 (MQ=255)
aaaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTaa > 1:1297627/1‑57 (MQ=255)
aaaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGAATaa > 1:2123534/1‑57 (MQ=255)
aaaTATCGAATTACAGTGATATACACATGTCTTGCCTCACTGCAAAGAAGAGACTa > 1:1429216/1‑56 (MQ=255)
aaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTg > 1:2979282/1‑71 (MQ=255)
aaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTg > 1:2919101/1‑71 (MQ=255)
aaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTg > 1:2697176/1‑71 (MQ=255)
aaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTg > 1:2084724/1‑71 (MQ=255)
aaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTg > 1:1318601/1‑71 (MQ=255)
aaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTg > 1:1413022/1‑71 (MQ=255)
atCGAATTACAGTGATATACACATGTCTTGCCTACCTGCAAAGAAGAGACTAACAt > 1:1958002/1‑56 (MQ=255)
atatACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGaa > 1:931223/1‑62 (MQ=255)
atatACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCt > 1:947504/1‑71 (MQ=255)
atatACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCt > 1:3114356/1‑71 (MQ=255)
atatACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCt > 1:1686487/1‑71 (MQ=255)
atatACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCt > 1:2653772/1‑71 (MQ=255)
atatACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCt > 1:2440714/1‑71 (MQ=255)
tataCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCt < 1:407438/65‑1 (MQ=255)
tataCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCt < 1:531057/65‑1 (MQ=255)
tataCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCt < 1:264797/65‑1 (MQ=255)
tataCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCt < 1:2639657/65‑1 (MQ=255)
tataCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCt < 1:1699196/65‑1 (MQ=255)
tataCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCt < 1:1766489/65‑1 (MQ=255)
tataCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCt < 1:2300455/65‑1 (MQ=255)
tataCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCt < 1:75811/65‑1 (MQ=255)
tataCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCt < 1:1849997/65‑1 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:1110680/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:3185525/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:1611910/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:3282496/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:558096/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:1094231/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:705162/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:712310/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:738132/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:860936/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:2921122/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:2071943/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:1232016/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:129401/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:2117949/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:2997315/1‑65 (MQ=255)
taCACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTgg > 1:2286545/1‑65 (MQ=255)
cacaTGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGt > 1:793427/1‑71 (MQ=255)
tCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGa > 1:112251/1‑68 (MQ=255)
tCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGa > 1:1767772/1‑68 (MQ=255)
tCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGa > 1:2120922/1‑68 (MQ=255)
gCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGa < 1:1178421/68‑1 (MQ=255)
gCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGa < 1:382212/68‑1 (MQ=255)
gCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGa < 1:2606396/68‑1 (MQ=255)
ccTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATc < 1:614252/69‑1 (MQ=255)
ccTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATc < 1:1064453/69‑1 (MQ=255)
ccTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATc < 1:2602941/69‑1 (MQ=255)
ccTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATc < 1:2656667/69‑1 (MQ=255)
ccTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATc < 1:2845314/69‑1 (MQ=255)
ccTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATc < 1:3171697/69‑1 (MQ=255)
ccTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCg < 1:1307672/70‑1 (MQ=255)
ccTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCg < 1:2086657/70‑1 (MQ=255)
ccTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCg < 1:778076/70‑1 (MQ=255)
ccTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCg < 1:491249/70‑1 (MQ=255)
ccTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCg < 1:1728720/70‑1 (MQ=255)
ccTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCg < 1:3016130/70‑1 (MQ=255)
|
TTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCG > W3110S.gb/2885925‑2886049
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
