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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,695,708 |
C→T |
33.8% |
L372F (CTT→TTT) |
yfhD → |
predicted transglycosylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,695,708 | 0 | C | T | 33.8%
| 86.6
/ 65.0
| 71 | L372F (CTT→TTT) | yfhD | predicted transglycosylase |
| Reads supporting (aligned to +/- strand): ref base C (21/26); new base T (11/13); total (32/39) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.39e-01 |
CCCGCGCCCTGACGGCAAAAACCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGACATGAAGCCTACGCT > W3110S.gb/2695637‑2695773
|
cccGCGCCCTGACGGCAAAAACCAAAGGGAAT‑CTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTAc > 1:4597873/1‑71 (MQ=255)
gcgcCCTGACGGCAAAAACCAACGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTAttt < 1:1011928/71‑1 (MQ=255)
cgcCCTGACGGCAAAAACCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTa < 1:2755317/71‑1 (MQ=255)
gcCCTGACGGCAAAAACCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTa < 1:5126408/70‑1 (MQ=255)
ccTGACGGCAAAAACCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGc > 1:1911463/1‑70 (MQ=255)
cTGACGGCAAAAACCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACtt > 1:3432992/1‑66 (MQ=255)
cTGACGGCAAAAACCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGc > 1:3331874/1‑69 (MQ=255)
gACGGCAAAAACCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTTGCCAg > 1:2547891/1‑70 (MQ=255)
gACGGCAAAAACCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAg > 1:161212/1‑70 (MQ=255)
aCGGCAAAAACCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGa < 1:4341567/70‑1 (MQ=255)
gCAAAAACCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAAcc < 1:21572/71‑1 (MQ=255)
cAAAAACCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTATTTAGCCAGAAAccc > 1:874980/1‑71 (MQ=255)
aaaaCCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTATTTAGCCAGAAACCCTa > 1:148547/1‑71 (MQ=255)
aaaaCCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTa > 1:1476423/1‑71 (MQ=255)
aaaaCCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTa < 1:2103305/71‑1 (MQ=255)
aaaCCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTATTTAGc < 1:1235602/59‑1 (MQ=255)
aaaCCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTAt < 1:4901684/71‑1 (MQ=255)
aaaCCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTAt < 1:4791759/71‑1 (MQ=255)
aaCCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTATTTAGCCAGAAACCCTAt > 1:3697597/1‑70 (MQ=255)
ccAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAAccc < 1:4852661/65‑1 (MQ=255)
ccAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAAccc < 1:3180293/65‑1 (MQ=255)
ccAAAGCGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAAccc < 1:2433966/65‑1 (MQ=255)
cAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGaa > 1:4189318/1‑60 (MQ=255)
aGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCa < 1:394680/71‑1 (MQ=255)
aGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCa < 1:3431341/71‑1 (MQ=255)
gAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTATTTAGCCAGAAACCCTATTACAGCAAGc < 1:4127183/71‑1 (MQ=255)
cTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACt > 1:3953291/1‑71 (MQ=255)
cTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACt > 1:104117/1‑71 (MQ=255)
gCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCt < 1:476740/43‑1 (MQ=255)
gCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCt < 1:2879714/43‑1 (MQ=255)
gCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCt < 1:1784421/43‑1 (MQ=255)
cTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCt < 1:1974823/71‑1 (MQ=255)
aCGTAAAACAGCGTCTGCCTTTATTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCg < 1:5123547/70‑1 (MQ=255)
aCGTAAAACAGCGTCTGCCTTTATTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGt > 1:439158/1‑71 (MQ=255)
aCGTAAAACAGCGTCTGCCTTTATTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGt > 1:112804/1‑71 (MQ=255)
aCGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCt < 1:3768346/52‑1 (MQ=255)
cGTAAAACAGCGTCTGCCTTTATTTAGCCAGAAACCCTATTa > 1:4702826/1‑42 (MQ=255)
cGTAAAACAGCGTCTGCCTTTATTTAGCCAGAAACCCTATTa > 1:5042091/1‑42 (MQ=255)
cGTAAAACAGCGTCTGCCTTTATTTAGCCAGAAACCCTATTa > 1:998783/1‑42 (MQ=255)
cGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTg < 1:3205072/71‑1 (MQ=255)
gTAAAACAGCGTCTGCCTTTATTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCg > 1:3193131/1‑68 (MQ=255)
gTAAAACAGCGTCTGCCTTTATTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCg > 1:2412447/1‑68 (MQ=255)
gTAAAACAGCGTCTGCCTTTATTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTgg < 1:173888/71‑1 (MQ=255)
gTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTa > 1:3332929/1‑38 (MQ=255)
gTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGa > 1:1308051/1‑52 (MQ=255)
gTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGa > 1:3923019/1‑52 (MQ=255)
tAAAACAGCGTCTGCCTTTATTTAGCCAGAAACCCTATTACAGCAAGCTg < 1:4578695/50‑1 (MQ=255)
tAAAACAGCGTCTGCCTTTATTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGa < 1:2929498/71‑1 (MQ=255)
tAAAACAGCGTCTGCCTTTATTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGa < 1:2142563/71‑1 (MQ=255)
tAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCaa < 1:5072481/46‑1 (MQ=255)
tAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGa < 1:4628694/71‑1 (MQ=255)
tAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGa < 1:632859/71‑1 (MQ=255)
tAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGa < 1:3155116/71‑1 (MQ=255)
aaaCAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGACa > 1:1714094/1‑71 (MQ=255)
aaCAGCGTCTGCCTTTATTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCt < 1:4797070/62‑1 (MQ=255)
aCAGCGTCTGCCTTTATTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGACAt < 1:2360951/70‑1 (MQ=255)
aCAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGACATg < 1:2638913/71‑1 (MQ=255)
aCAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGACATg < 1:62010/71‑1 (MQ=255)
cGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGACATGAAGc > 1:4400998/1‑71 (MQ=255)
gTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGACATGAAGcc > 1:4495582/1‑71 (MQ=255)
tCTGCCTTTATTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGACa > 1:4026104/1‑63 (MQ=255)
cTGCCTTTATTTAGCCAGAAACCCTATTACAGCAAGCTGACt < 1:4392436/42‑1 (MQ=255)
gCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGACATGAAGCCTACg > 1:2499719/1‑71 (MQ=255)
cTTTATTTAGCCAGAAGCCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGACATGAAGCCTACGCt < 1:2166947/71‑1 (MQ=255)
cTTTATTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGACATGAAGCCTACGCt < 1:2936279/71‑1 (MQ=255)
cTTTATTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGACATGAAGCCTACGCt < 1:586390/71‑1 (MQ=255)
cTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGACATGAAGCCTACGCt < 1:1311093/71‑1 (MQ=255)
ttACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGACATGAAGCCTACGCt < 1:2746567/69‑1 (MQ=255)
ttACTAAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTc > 1:3295468/1‑49 (MQ=255)
tACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTa > 1:2823186/1‑43 (MQ=255)
tACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTa > 1:4910324/1‑43 (MQ=255)
tACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTa > 1:2422944/1‑43 (MQ=255)
tACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTa > 1:2645765/1‑43 (MQ=255)
|
CCCGCGCCCTGACGGCAAAAACCAAAGGGAATCCTGACAGTTGGGCTGACGTAAAACAGCGTCTGCCTTTACTTAGCCAGAAACCCTATTACAGCAAGCTGACTTACGGCTACGCTCGTGGACATGAAGCCTACGCT > W3110S.gb/2695637‑2695773
|
| 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
