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 |
1,074,318 |
G→T |
38.7% |
A39E (GCG→GAG) |
ycdM ← |
predicted monooxygenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,074,318 | 0 | G | T | 38.7%
| 93.3
/ 52.7
| 62 | A39E (GCG→GAG) | ycdM | predicted monooxygenase |
| Reads supporting (aligned to +/- strand): ref base G (22/16); new base T (12/12); total (34/28) |
| Fisher's exact test for biased strand distribution p-value = 6.06e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01 |
ATCGAAATGGTAGTGCTCCGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGCCAATTTTCATCATC > W3110S.gb/1074248‑1074380
|
atcgaaatGGTAGTGCTCCGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTgcggcg < 1:982218/71‑1 (MQ=255)
atcgaaatGGTAGTGCTCCGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTgcggcg < 1:4826247/71‑1 (MQ=255)
cgaaatGGTAGTGCTCCGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGctcg > 1:3436572/1‑71 (MQ=255)
cgaaatGGTAGTGCTCCGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGctcg > 1:4632241/1‑71 (MQ=255)
gTAGTGCTCCGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCTCGt > 1:3116905/1‑65 (MQ=255)
gTAGTGCTCCGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTc > 1:2680341/1‑70 (MQ=255)
gTAGTGCTCCGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTc > 1:5073025/1‑70 (MQ=255)
gTAGTGCTCCGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCg < 1:4508617/71‑1 (MQ=255)
tAGTGCTCCGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCTCGTGGGTCGa < 1:181026/71‑1 (MQ=255)
aGTGCTCCGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCTCGTGGGTCGa > 1:2320480/1‑70 (MQ=255)
cTCCGCTTTTTGCACAATGGCTTTATTGAGTTCAAAGGTCGGCATGTACTGCGGCTCGTGGGTCGAAAt > 1:589258/1‑69 (MQ=255)
cTCCGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAAt > 1:4364764/1‑69 (MQ=255)
cTCCGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGGGGGTCGAAATGa < 1:943315/71‑1 (MQ=255)
ccGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCTCGTGGGTCGAAATGagc > 1:1346357/1‑71 (MQ=255)
ccGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCTCGTGGGTCGAAATGagc > 1:2521147/1‑71 (MQ=255)
cGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGagc < 1:4946192/70‑1 (MQ=255)
cGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGag < 1:1019115/69‑1 (MQ=255)
gCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCTCGTg > 1:5031182/1‑56 (MQ=255)
gCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCTCGTg > 1:1145322/1‑56 (MQ=255)
gCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCTCGTg > 1:1730045/1‑56 (MQ=255)
tttGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCg > 1:5033582/1‑71 (MQ=255)
ttGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGagccagcc > 1:4465570/1‑69 (MQ=255)
ttGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGagccagcc > 1:1573377/1‑69 (MQ=255)
tGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCTCGTGGGTCGAAATGAGCCAGCCgt < 1:902070/70‑1 (MQ=255)
tGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCgtt > 1:2583669/1‑71 (MQ=255)
gCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCTCGTGGGTCGAAATGAGCCAGCCgtt < 1:4570968/70‑1 (MQ=255)
gCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCgttg > 1:3739549/1‑71 (MQ=255)
gCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCgtt < 1:2253078/70‑1 (MQ=255)
aTGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCTCGTGGGTCGAAATGAGCCAGCCGTTGTTGc > 1:245697/1‑70 (MQ=255)
aTGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTgg < 1:2862040/45‑1 (MQ=255)
aTGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGcc < 1:68840/71‑1 (MQ=255)
aTGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGcc < 1:4393947/71‑1 (MQ=255)
aTGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGcc < 1:913655/71‑1 (MQ=255)
tGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGcc > 1:387364/1‑70 (MQ=255)
tGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGcc > 1:2088290/1‑70 (MQ=255)
tATTCAGTTCAAAGGTCGGCATGTACTGCGGCTCGTGGGTCGAAATGagccagcc < 1:2775726/55‑1 (MQ=255)
tATTCAGTTCAAAGGTCGGCATGTACTGCGGCTCGTGGGTCGAAATGagccagcc < 1:4483225/55‑1 (MQ=255)
aTTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGGCAATAGGt < 1:1839756/70‑1 (MQ=255)
aTTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGt < 1:5097853/70‑1 (MQ=255)
ttCAGTTCAAAGGTCGGCATGTACTGCGGCTCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTAc > 1:2101535/1‑71 (MQ=255)
cAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGagcca > 1:2021927/1‑48 (MQ=255)
cAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACg > 1:4254950/1‑70 (MQ=255)
ttCAAAGGTCGGCATGTACTGCGGCTCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATa > 1:157813/1‑71 (MQ=255)
ttCAAAGGTCGGCATGTACTGCGGCTCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATa > 1:2698028/1‑71 (MQ=255)
tCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCgttg > 1:2115420/1‑51 (MQ=255)
tCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCgttg > 1:2947382/1‑51 (MQ=255)
aaGGTCGGCATGTACTGCGGCTCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGcc < 1:3289973/71‑1 (MQ=255)
cGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATAc > 1:874244/1‑63 (MQ=255)
cGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATAc > 1:4711407/1‑63 (MQ=255)
ggCATGTACTGCGGCTCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGCCAAttt < 1:3373097/70‑1 (MQ=255)
gCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCgttgtt > 1:1755745/1‑43 (MQ=255)
cATGTACTGCGGCTCGTGGGTCTAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGCCAATTTtc < 1:1757799/70‑1 (MQ=255)
cATGTACTGCGGCTCGTGGGTCGAAATGAGCCAGCCTTTGTTGCCAATAGGTACGAATACGCCAATTTtc < 1:372974/70‑1 (MQ=255)
cATGTACTGCGGCTCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGCCAATTTtc < 1:2468082/70‑1 (MQ=255)
cATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGCCAATTTtca < 1:500766/71‑1 (MQ=255)
cATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGCCAATTTtca > 1:3195781/1‑71 (MQ=255)
cATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGCCAATTTtca > 1:2750421/1‑71 (MQ=255)
aTGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGCCAATTTtcat < 1:766789/71‑1 (MQ=255)
tGTACTGCGGCTCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGCCAATTTtc < 1:2796581/68‑1 (MQ=255)
tGTACTGCGGCTCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGCCAATTTtc < 1:704490/68‑1 (MQ=255)
tGTACTGCGGCGCGTGGGGCGAAATGAGCCAGCCgttg < 1:2581323/38‑1 (MQ=255)
tACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAg > 1:3342016/1‑46 (MQ=255)
tACTGCGGCGAGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGCCAATTTtcatcat > 1:5074514/1‑71 (MQ=255)
cTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGCCAATTTtcatcatc < 1:1268880/70‑1 (MQ=255)
cTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGCCAATTTtcatcatc > 1:138412/1‑70 (MQ=255)
cTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGCCAATTTtcatcatc < 1:1297747/70‑1 (MQ=255)
gcggctCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGaa < 1:4881522/49‑1 (MQ=255)
cggcgCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGc > 1:164231/1‑53 (MQ=255)
cggcgCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGc > 1:1254077/1‑53 (MQ=255)
|
ATCGAAATGGTAGTGCTCCGCTTTTTGCACAATGGCTTTATTCAGTTCAAAGGTCGGCATGTACTGCGGCGCGTGGGTCGAAATGAGCCAGCCGTTGTTGCCAATAGGTACGAATACGCCAATTTTCATCATC > W3110S.gb/1074248‑1074380
|
| 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
