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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,992,923 |
C→T |
25.6% |
pseudogene (227/375 nt) |
pbl → |
ECK2852:JW5457:b2854; predicted peptidoglycan‑binding enzyme |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,992,923 | 0 | C | T | 25.6%
| 157.8
/ 59.1
| 90 | pseudogene (227/375 nt) | pbl | ECK2852:JW5457:b2854; predicted peptidoglycan‑binding enzyme |
| Reads supporting (aligned to +/- strand): ref base C (19/47); new base T (9/14); total (29/61) |
| Fisher's exact test for biased strand distribution p-value = 4.36e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.22e-01 |
AAACGTGGAATAATAAAAGATGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACTTATAATGCGGG > W3110S.gb/2992856‑2992992
|
aaaCGTGGAATAATAAAAGATGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCga < 1:2639683/71‑1 (MQ=255)
tgtaataatAAAAGATGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGAttt < 1:3481345/68‑1 (MQ=255)
tGGAATAATAAAAGATGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGAttt > 1:859336/1‑71 (MQ=255)
ggAATAATAAAAGATGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGAttt > 1:3903994/1‑70 (MQ=255)
gAATAATAAAAGATGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAATCGAGATTTta < 1:2628538/71‑1 (MQ=255)
ataaAAGATGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAATCGAGATTTTATATaa > 1:4018937/1‑71 (MQ=255)
ataaAAGATGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATaa > 1:633640/1‑71 (MQ=255)
aaaaGATGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAAc > 1:3376514/1‑70 (MQ=255)
aaaaGATGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAAc > 1:3666247/1‑70 (MQ=255)
aaaaGATGAACGAGATTTGTTAGATAACCCTTGGCTGAAGATTTAAATAGGAATCgag < 1:1257198/58‑1 (MQ=255)
aaGATGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCAt < 1:3212331/71‑1 (MQ=255)
gATGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCAttt < 1:1488711/71‑1 (MQ=255)
tGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAATCGAGATTTTATATAACCAttttt > 1:569876/1‑71 (MQ=255)
tGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCga < 1:1776392/51‑1 (MQ=255)
tGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCga < 1:3456/51‑1 (MQ=255)
tGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCAttttt < 1:892741/71‑1 (MQ=255)
tGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCAttttt < 1:1400740/71‑1 (MQ=255)
tGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCAttttt > 1:1986533/1‑71 (MQ=255)
gagaTTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGt > 1:3737757/1‑71 (MQ=255)
aTTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCga < 1:1713099/43‑1 (MQ=255)
aTTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCga < 1:2775406/43‑1 (MQ=255)
aTTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCAc < 1:908790/66‑1 (MQ=255)
tttGTTAGATAACCCTTGTCTGAACATTAAAATAGGAATCGAGATTTTATATAACCATTTTTCACGTtgtg < 1:1284907/71‑1 (MQ=255)
tttGTTAGATAACCCTTGTCTGAACATTAAAATAGGAATCGAGATTTTATATAACCATTTTTCACGTtgtg < 1:2024537/71‑1 (MQ=255)
tttGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTtgtg < 1:2554336/71‑1 (MQ=255)
ttGTTAGATAACCCTTGTCTGAACATTAAAATAGGAATCGAGATTTTATATAACCATTTTTCACGTtgtg > 1:3924766/1‑70 (MQ=255)
ttGTTAGATAACCCTTGTCTGAACATTAAAATAGGAATCGAGATTTTATATAACCATTTTTCACGTtgtg > 1:1472134/1‑70 (MQ=255)
ttGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGt > 1:1303366/1‑66 (MQ=255)
tGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTtgtg > 1:1204128/1‑69 (MQ=255)
aTAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTtgtg < 1:3118256/63‑1 (MQ=255)
aTAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTtgtg < 1:1982032/63‑1 (MQ=255)
aTAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTtgtg < 1:341307/63‑1 (MQ=255)
aaCCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTg > 1:852311/1‑71 (MQ=255)
cccTTGTCTGAACATTAAAATAGGAATCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGc < 1:2283887/71‑1 (MQ=255)
cccTTGTCTGAACATTAAAATAGGAATCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGc < 1:2593497/71‑1 (MQ=255)
cccTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGc < 1:3394910/71‑1 (MQ=255)
cccTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGc < 1:1163851/71‑1 (MQ=255)
cccTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGc < 1:3842544/71‑1 (MQ=255)
cccTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGc < 1:3877050/71‑1 (MQ=255)
cccTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGc < 1:1952267/71‑1 (MQ=255)
cccTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGc < 1:1942402/71‑1 (MQ=255)
cccTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGc < 1:14527/71‑1 (MQ=255)
ccTTGTCTGAACATTAAAATAGGAATCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGc < 1:1438263/70‑1 (MQ=255)
ccTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTtgtg < 1:3337436/58‑1 (MQ=255)
ccTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTaa > 1:3492039/1‑64 (MQ=255)
ccTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGc < 1:857702/70‑1 (MQ=255)
cTTGTCTGAACATTAAAATAGGAATCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCaa < 1:1490041/71‑1 (MQ=255)
cTTGTCTGAACATTAAAATAGGAACCGAGATTTta < 1:840247/35‑1 (MQ=255)
cTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGa > 1:2292441/1‑59 (MQ=255)
cTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCaa < 1:2680660/71‑1 (MQ=255)
cTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCaa < 1:3381499/71‑1 (MQ=255)
gTCTGAACATTAAAATAGGAATCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATg < 1:964266/70‑1 (MQ=255)
gTCTGAACATTAAAATAGGAATCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGc > 1:3926043/1‑71 (MQ=255)
gTCTGAACATTAAAATAGGAATCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGc > 1:2222113/1‑71 (MQ=255)
gTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAAt < 1:735309/69‑1 (MQ=255)
gTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGc > 1:2192288/1‑71 (MQ=255)
gTCTGAACATTAAAATAGGAAACGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGc > 1:2395228/1‑71 (MQ=255)
tCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTtgtg < 1:2219602/53‑1 (MQ=255)
cTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTtgtg < 1:3230032/52‑1 (MQ=255)
cTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTtgtg < 1:1364036/52‑1 (MQ=255)
aaCATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTggg > 1:3777978/1‑71 (MQ=255)
aaCATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTggg > 1:2880151/1‑71 (MQ=255)
aTTAAAATAGGAATCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGc < 1:818692/58‑1 (MQ=255)
ttAAAATAGGAATCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACt < 1:689885/71‑1 (MQ=255)
ttAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGt < 1:1294067/41‑1 (MQ=255)
ttAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGt < 1:227747/41‑1 (MQ=255)
ttAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGt < 1:469902/41‑1 (MQ=255)
tAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACt > 1:1839036/1‑70 (MQ=255)
aaaaTAGGAATCGAGATTTTATATAACCATTTTTCACGTTGTGGa > 1:419373/1‑45 (MQ=255)
aaaaTAGGAATCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACTta > 1:1709963/1‑71 (MQ=255)
aaaaTAGGAATCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACTta > 1:489150/1‑71 (MQ=255)
aaaaTAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGcc > 1:2481209/1‑61 (MQ=255)
aaaaTAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACTta > 1:1144833/1‑71 (MQ=255)
aaaaTAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACTta > 1:2966949/1‑71 (MQ=255)
aaaTAGGAATCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACTtat < 1:3665599/71‑1 (MQ=255)
aaaTAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACTtat < 1:2125309/71‑1 (MQ=255)
aaaTAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACTtat < 1:2365276/71‑1 (MQ=255)
aaaTAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACTtat < 1:3777402/71‑1 (MQ=255)
aaaTAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACTtat < 1:2418794/71‑1 (MQ=255)
aaaTAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACTtat < 1:1483504/71‑1 (MQ=255)
aTAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACTTATaa < 1:3277813/71‑1 (MQ=255)
aGGAATCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGc < 1:4058096/50‑1 (MQ=255)
aGGAATCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGc < 1:2472952/50‑1 (MQ=255)
aaCCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGcc < 1:3147748/53‑1 (MQ=255)
aaCCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGcc < 1:3507509/53‑1 (MQ=255)
aaCCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGcc < 1:1204134/53‑1 (MQ=255)
aaCCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGcc < 1:597607/53‑1 (MQ=255)
aaCCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGcc < 1:3099476/53‑1 (MQ=255)
aaCCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGcc < 1:4039584/53‑1 (MQ=255)
aCCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACTTATAATGCggg < 1:280215/71‑1 (MQ=255)
|
AAACGTGGAATAATAAAAGATGAACGAGATTTGTTAGATAACCCTTGTCTGAACATTAAAATAGGAACCGAGATTTTATATAACCATTTTTCACGTTGTGGAGTAACGTGGCAATGCCTGGGGACTTATAATGCGGG > W3110S.gb/2992856‑2992992
|
| 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
