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 |
|
A4 F1 I1 R1
|
765 |
39.6 |
1867486 |
94.4% |
1762906 |
108.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,598,557 |
A→G |
*368Q (TAA→CAA) |
livJ ← |
branched‑chain amino acid ABC transporter periplasmic binding protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,598,557 | 0 | A | G | 100.0%
| 150.8
/ NA
| 42 | *368Q (TAA→CAA) | livJ | branched‑chain amino acid ABC transporter periplasmic binding protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (23/19); total (23/19) |
TGTGTTGCAATTTACTGATTTCTTTGGATCTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTACTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGG > NC_000913/3598430‑3598688
|
tgtgtTGCAATTTACTGATTTCTTTGGATCTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCgg > 1:741101/1‑139 (MQ=255)
tgtgtTGCAATTTACTGATTTCTTTGGATCTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCgg > 1:653030/1‑139 (MQ=255)
tgtgtTGCAATTTACTGATTTCTTTGGATCTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCgg > 2:797899/1‑139 (MQ=255)
tttGGATCTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCa < 1:157639/139‑1 (MQ=255)
tGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGc > 1:134511/1‑128 (MQ=255)
tGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGc < 2:134511/128‑1 (MQ=255)
tGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATAc > 1:329284/1‑139 (MQ=255)
tGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATAc > 2:628782/1‑139 (MQ=255)
ggATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACt > 2:300502/1‑139 (MQ=255)
ggATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGAGTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACt < 1:628782/139‑1 (MQ=255)
gATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACt < 1:586319/138‑1 (MQ=255)
gATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGATCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACt > 2:586319/1‑138 (MQ=255)
aaGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCaaa < 2:653030/139‑1 (MQ=255)
ttACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTc > 1:783749/1‑139 (MQ=255)
tACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCa > 1:62268/1‑139 (MQ=255)
tACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCa < 2:783749/139‑1 (MQ=255)
cgccgcATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGa < 2:329284/139‑1 (MQ=255)
cATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGcc > 1:562600/1‑139 (MQ=255)
cATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGcc < 2:562600/139‑1 (MQ=255)
aGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCa > 2:840645/1‑139 (MQ=255)
tCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGt > 1:851926/1‑139 (MQ=255)
tAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTa < 1:840645/139‑1 (MQ=255)
aTTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCCTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTa > 1:101180/1‑139 (MQ=255)
ttGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGt > 2:95909/1‑125 (MQ=255)
ttGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGt < 1:95909/125‑1 (MQ=255)
ttGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTAc > 1:853995/1‑133 (MQ=255)
ttGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTAc < 2:853995/133‑1 (MQ=255)
ttGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATc > 2:696412/1‑139 (MQ=255)
ccAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCg < 1:6960/139‑1 (MQ=255)
ccGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGc < 2:39958/45‑1 (MQ=255)
ccGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGc > 1:39958/1‑45 (MQ=255)
ccGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCa < 1:863313/100‑1 (MQ=255)
ccGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCa > 2:863313/1‑100 (MQ=255)
ccGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTccc < 1:252573/108‑1 (MQ=255)
ccGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTccc > 2:252573/1‑108 (MQ=255)
cGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAAt < 1:665843/53‑1 (MQ=255)
cGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAAt > 2:665843/1‑53 (MQ=255)
cGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGcc < 1:324221/58‑1 (MQ=255)
cGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGcc > 2:324221/1‑58 (MQ=255)
aaTGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTgg < 1:696412/139‑1 (MQ=255)
aTGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGcc > 2:709106/1‑52 (MQ=255)
aTGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGcc < 1:709106/52‑1 (MQ=255)
|
TGTGTTGCAATTTACTGATTTCTTTGGATCTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTACTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGG > NC_000913/3598430‑3598688
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
