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 |
|
A13 F68 I1 R1
|
13 |
30.2 |
709236 |
94.0% |
666681 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
USA300TCH1516_ALE |
1,648,014 |
C→T |
D151N (GAT→AAT) |
lipM ← |
Octanoyltransferase LipM |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | USA300TCH1516_ALE | 1,648,014 | 0 | C | T | 100.0%
| 73.4
/ NA
| 24 | D151N (GAT→AAT) | lipM | Octanoyltransferase LipM |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (13/11); total (13/11) |
ATCAAACAGTTCATCAATATCAATATCTTGTAAAATCGAACCGTGTTGGAGGATTACGCCCTTTTGTCTCGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATCAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCTTCAGGCGTTTTAGGTACCGCAAAATAAGTATCAAATCCTAAGTTTTTAAATCCTTCTAATAATCCTTGTGAAATCACTCTGTACGCTTCTGTA > USA300TCH1516_ALE/1647883‑1648150
|
atCAAACAGTTCATCAATATCAATATCTTGTAAAATCGAACCGTGTTGGAGGATTACGCCC‑TTTGTCTCGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATTAAAACACACt > 1:293418/1‑141 (MQ=255)
aaaCAGTTCATCAATATCAATATCTTGTAAAATCGAACCGTGTTGGAGGATTACGCCCTTTTGTCTCGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGATCATACCAACTTGGTGCATTAAAACACACTGa > 2:125822/1‑141 (MQ=255)
atcaagatcaatATCTTGTAAAATCGAACCGTGTTGGAGGATTACGCCCTTTTGTCTCGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATTAAAACACACTGAACTTCGAgg < 2:72187/141‑1 (MQ=255)
tcaatatcTTGTAAAATCGATCCGTGTTGGAGGATTACGCCCTTTTGTCTCGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATTAAAACACACTGAACTTCGAGGTTGtttt < 2:87355/141‑1 (MQ=255)
tcaatatcTTGTAAAATCGAACCGTGTTGGAGGATTACGCCCTTTTGTCGCGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATTAAAACACACTGAACTTCGAGGTTGtttt < 2:117205/141‑1 (MQ=255)
atatcTTGTAAAATCGAACCGTGTTGGAGGATTACGCCCTTTTGTCTAGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATTAAAACGCACTGACCTGCCACGTTCTTTTata > 2:221467/1‑139 (MQ=255)
atcTTGTAAAATCGAACCGTGTTGGAGGATTACGCCCTTTTGTCTCGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATTAAAACACACTGAACTTCGAGGTTGTTTTCAtct > 2:346527/1‑139 (MQ=255)
tCGAACCGTGCTCGAGGATTACGCCCTTTTGTCTCGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATTAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCtt < 1:132244/141‑1 (MQ=255)
cGAACCGTGTTGGAGGATTACGCCCTTTTGTCTCGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATTAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCTTc < 1:211016/141‑1 (MQ=255)
aCCGTGTTGGAGGATTACGCCCTTTTGTCTCGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCACCTTGGTGCATTAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCTTCAgg > 1:195331/1‑141 (MQ=255)
cGTGTTGGAGGATTACGCCCTTTTGTCTCGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATTAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCTTCAGGCg > 2:257892/1‑141 (MQ=255)
tgtTGGAGGATTACGCCCTTTTGTCTCGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATTAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCTTCAGGCGtt < 2:294219/141‑1 (MQ=255)
aggaTTACGTCCTTTTGTCTCGTTTGATCACTCCCATCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATTAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTATCCATCTTCAGGTGTTTTAGGt < 2:129752/141‑1 (MQ=255)
gCCCTTTTGTCTCGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATTAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCTTCAGGCGTTTTAGGTACCGCaaa < 1:107475/141‑1 (MQ=255)
cTTTTGTCTCGTTTGAGCACTCGCAGCAATCTTACGGACTTCAACAACTAGCTCATACCAACTTGGTGCATTAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCTTCAAGCGTTTTAAGTACCGCAAAATa > 2:53367/1‑141 (MQ=255)
tctcGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATTAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCTTCAGGCGTTTTAGGTACCGCAAAATAAGTATc > 1:106225/1‑141 (MQ=255)
tctcGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATTAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCTTCAGGCGTTTTAGGTACCGCAAAATAAGTATc > 1:18758/1‑141 (MQ=255)
aCTCCTAGTAATCTTACGGAATTCAACAACGATCTCATACCAACTTGGTGCATTAAAACAAACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCTTCAGGCGTTTTAGGTACCGCAAAATAAGTATCAAATCCTAAGtt < 2:322971/141‑1 (MQ=255)
acTAGCTCATACCAACGTGGTGCATTAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCTTCAGGCGTTTTAGGTACCGCAAAATAAGTATGAAATCCTAAGTTTCTGCATCGTTCTAATCATCCTTGTCaa > 2:170713/1‑141 (MQ=255)
cTAGCTCATACCAACTTGGTGCATTAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCTTCAGGCGTTTTAGGTACCGCAAAATAAGTATCAAATCCTAAGTTTTTAAATCCTTCTAATAATCCTTGTGaaa < 2:106225/141‑1 (MQ=255)
cTAGCTCATACCAACTTGGTGCATTAAAACACACTGAACTTAGAGGTTGTTATAATTTTTGACGCTCTTCAGGCGTTTTAGGTACCGCAAAATAAGTATCAAATCCTAAGTTTTTAAATCATTCTAATAATCCTTGTGaaa > 1:129319/1‑141 (MQ=255)
aTACCAACTTGGTGCATTAAAACACACTGAACTTCGCGGTTGTTTTAATTTTTGACGCTCTTCAGGCGTTTTAGGTACCGCAAAATCAGTATCAAATCCTAAGTTTTTAAATCCTTCTAATAATCCTTGTCAAATCActct > 2:253186/1‑141 (MQ=255)
aaCTTGGTGCATTAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCTTCAGGCGTTTTAGGTACCGCAAAATAAGTATCAAATCCTAAGTTTTTAAATCCTTCTAATAATCCTTGTGAAATCACTCTGTACg < 1:257892/141‑1 (MQ=255)
gCATTAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCTTCAGGCGTTTTAGGTACCGCAAAATAAGTATCAAATCATCAGTTAATTGATCCTTCTAATAATCCTTGTGAAATCACTCTGTACGCTTATGTa > 2:159561/1‑141 (MQ=255)
|
ATCAAACAGTTCATCAATATCAATATCTTGTAAAATCGAACCGTGTTGGAGGATTACGCCCTTTTGTCTCGTTTGAGCACTCCCAGCAATCTTACGGCCTTCAACAACTAGCTCATACCAACTTGGTGCATCAAAACACACTGAACTTCGAGGTTGTTTTAATTTTTGACGCTCTTCAGGCGTTTTAGGTACCGCAAAATAAGTATCAAATCCTAAGTTTTTAAATCCTTCTAATAATCCTTGTGAAATCACTCTGTACGCTTCTGTA > USA300TCH1516_ALE/1647883‑1648150
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
