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 |
|
A6 F1 I2 R1
|
758 |
59.3 |
2864096 |
93.9% |
2689386 |
105.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,788,278 |
G→A |
*278* (TAG→TAA) |
ppsR → |
PEP synthase kinase and PEP synthase pyrophosphorylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,788,278 | 0 | G | A | 100.0%
| 121.5
/ NA
| 39 | *278* (TAG→TAA) | ppsR | PEP synthase kinase and PEP synthase pyrophosphorylase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/18); total (21/18) |
TCGCGGAAGTGGAAGCCTTGTACCGTAAAAATCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAGAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGTCCTGCC > NC_000913/1788154‑1788405
|
tCGCGGAAGTGGAAGCCTTGTACCGTAAAAATCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCAtt > 2:594213/1‑139 (MQ=255)
gAAGCCTTGTACCGTAAAAATCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCAt > 2:748252/1‑127 (MQ=255)
gAAGCCTTGTACCGTAAAAATCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCAt < 1:748252/127‑1 (MQ=255)
tAAAAATCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTa > 2:979249/1‑139 (MQ=255)
aTCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAaccac < 1:594213/139‑1 (MQ=255)
tCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAaccacc < 2:1186077/139‑1 (MQ=255)
ttAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTa > 2:841012/1‑111 (MQ=255)
ttAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTa < 1:841012/111‑1 (MQ=255)
ccAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTAGTGTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGgt < 1:1196473/127‑1 (MQ=255)
ccAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTAGTGTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGgt > 2:1196473/1‑127 (MQ=255)
tCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTAtt < 2:1017951/85‑1 (MQ=255)
tCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTAtt > 1:1017951/1‑85 (MQ=255)
tCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTa < 1:129774/94‑1 (MQ=255)
tCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTa > 2:129774/1‑94 (MQ=255)
gaagaGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATcagca < 1:979249/139‑1 (MQ=255)
attcccaccaAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCagcagc > 2:1193849/5‑135 (MQ=255)
aTTCCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCagcagc < 1:1193849/135‑1 (MQ=255)
tGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAgg > 2:610296/1‑102 (MQ=255)
tGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAgg < 1:610296/102‑1 (MQ=255)
tGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGAt > 1:461745/1‑136 (MQ=255)
tGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGAt < 2:461745/136‑1 (MQ=255)
tGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTgg > 1:1322484/1‑139 (MQ=255)
ccaccaAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGtt > 2:679085/1‑139 (MQ=255)
tCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAaccac > 1:756243/1‑79 (MQ=255)
tCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAaccac < 2:756243/79‑1 (MQ=255)
gATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCg > 1:809627/1‑83 (MQ=255)
gATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCg < 2:809627/83‑1 (MQ=255)
cATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACt > 2:1193735/1‑139 (MQ=255)
tGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCg > 2:713690/1‑76 (MQ=255)
tGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCg < 1:713690/76‑1 (MQ=255)
tGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATcag < 1:678981/106‑1 (MQ=255)
tGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGAt < 2:459317/127‑1 (MQ=255)
tGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGAt > 1:459317/1‑127 (MQ=255)
tGGGCCTTAGTAGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATcag > 2:678981/1‑106 (MQ=255)
ccGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGtt < 1:138551/43‑1 (MQ=255)
ccGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGtt > 2:138551/1‑43 (MQ=255)
ccGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCAt > 2:410330/1‑120 (MQ=255)
ccGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCAt < 1:410330/120‑1 (MQ=255)
cGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGTCCTGcc > 1:843647/1‑139 (MQ=255)
|
TCGCGGAAGTGGAAGCCTTGTACCGTAAAAATCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAGAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGTCCTGCC > NC_000913/1788154‑1788405
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
