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 |
|
A1 F2 I207 R1
|
218 |
45.0 |
2482936 |
97.1% |
2410930 |
86.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,934,547 |
T→C |
intergenic (‑97/+23) |
lpxM ← / ← mepM |
lauroyl‑Kdo(2)‑lipid IV(A) myristoyltransferase/murein DD‑endopeptidase MepM |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,934,547 | 0 | T | C | 100.0%
| 99.2
/ NA
| 30 | intergenic (‑97/+23) | lpxM/mepM | lauroyl‑Kdo(2)‑lipid IV(A) myristoyltransferase/murein DD‑endopeptidase MepM |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (17/13); total (17/13) |
TTTCGGATAAGGCAAAAATCAATCTGGTGATAGTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGTACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACAATCTCTTTGGCCTGCGCCAGGAATTCGCGACGATC > NZ_CP009273/1934461‑1934629
|
tttCGGATAAGGCAAAAATCAATCTGGTGATAGTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCAcc < 2:702385/90‑1 (MQ=255)
aTAAGGCAAAAATCAATCTGGTGATAGTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGc < 2:668334/90‑1 (MQ=255)
aGGCAAAAATCAATCTGGTGATAGTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGaa > 1:168247/1‑90 (MQ=255)
aGGCAAAAATCAATCTGGTGATAGTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGaa > 2:274213/1‑90 (MQ=255)
ggCAAAAATCAATCTGGTGATANTGTAGAGGCGCAACTTGCCCCGCAACAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAAt < 2:343869/90‑1 (MQ=255)
aatcTGGTGATAGTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGttaat < 2:807491/90‑1 (MQ=255)
aatcTGGTGATAGTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGttaat > 1:674809/1‑90 (MQ=255)
ggTGATAGTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATc < 2:415181/90‑1 (MQ=255)
tGATAGTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCaa < 2:151870/90‑1 (MQ=255)
gtAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAg > 2:165879/1‑90 (MQ=255)
tAGCGGCGCAACTTGCCCCGCACCAAATAAAAAGAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTa > 2:805348/1‑88 (MQ=255)
tAGCGGCGCAACTTGCCCCGCACCAAATAAAAAGAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTa < 1:805348/88‑1 (MQ=255)
tAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGc > 2:99725/1‑90 (MQ=255)
aGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCt > 2:645338/1‑90 (MQ=255)
cggcgCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGc < 1:645338/90‑1 (MQ=255)
gcgcAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCgg > 2:148725/1‑90 (MQ=255)
gcgcAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCgg > 2:888468/1‑90 (MQ=255)
gcgcAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCgg > 1:678914/1‑90 (MQ=255)
gcAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGca > 1:1002268/1‑90 (MQ=255)
gcAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGca > 1:97092/1‑90 (MQ=255)
gcAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGca > 2:1130060/1‑90 (MQ=255)
aCTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACaa < 2:678914/90‑1 (MQ=255)
cTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACAAt < 1:352615/90‑1 (MQ=255)
gCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACAATCTCTTTgg > 2:842735/1‑90 (MQ=255)
ccAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACAATCTCTTTGGCCt < 1:1193927/90‑1 (MQ=255)
ccAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGCAGCTGCGGCACAATCTCTTTGGCCt < 2:493563/90‑1 (MQ=255)
gactgCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACCATCTCTTTGGCCTGGGACAGGAATTCCCGACGATc > 1:1180586/1‑90 (MQ=255)
gactgCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACAAt < 2:375582/57‑1 (MQ=255)
gactgCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACAAt > 1:375582/1‑57 (MQ=255)
gactgCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACAATCTCTTTGGCCTGCGCCAGGAATTCGCGACGATc > 1:866762/1‑90 (MQ=255)
|
TTTCGGATAAGGCAAAAATCAATCTGGTGATAGTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGTACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACAATCTCTTTGGCCTGCGCCAGGAATTCGCGACGATC > NZ_CP009273/1934461‑1934629
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GTTTCGGATAAGGCAAAAATCAATCTGGTGATAGTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGTACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACAATCTCTTTGGCCTGCGCCAGGAATTCGCGACGATC > NZ_CP009273/1934460‑1934629
|
GTTTCGGATAAGGCAAAAATCAATCTGGTGATAGTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAA > SRR3722089.170346/1‑100 (MQ=60)
GGCAAAAATCAATCTGGTGATAGTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAAT > SRR3722089.683553/1‑100 (MQ=60)
TAGTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGG > SRR3722089.687727/1‑100 (MQ=60)
GTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCA > SRR3722089.1017170/1‑100 (MQ=60)
GTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCA > SRR3722089.98299/1‑100 (MQ=60)
TGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAGAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCAC < SRR3722089.816545/100‑1 (MQ=60)
CGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACAATCT < SRR3722089.653589/100‑1 (MQ=60)
CTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACAATCTCTTTGGCC < SRR3722089.356982/100‑1 (MQ=60)
CCAAATAAAAAAAGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACAATCTCTTTGGCCTGCGCCAGGAA < SRR3722089.1212079/100‑1 (MQ=60)
AGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACCATCTCTTTGGCCTGGGACAGGAATTCCCGACGATC > SRR3722089.1198572/1‑100 (MQ=60)
AGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACAATCTCTTTGGCCctgtctcttatacacatctgacg > SRR3722089.380178/1‑77 (MQ=60)
AGCCGGTACTGACTGCGCACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACAATCTCTTTGGCCTGCGCCAGGAATTCGCGACGATC > SRR3722089.879183/1‑100 (MQ=60)
|
GTTTCGGATAAGGCAAAAATCAATCTGGTGATAGTGTAGCGGCGCAACTTGCCCCGCACCAAATAAAAAAAGCCGGTACTGACTGCGTACCGGCTGCGAATGGATGTTAATTAATCAAACCGTAGCTGCGGCACAATCTCTTTGGCCTGCGCCAGGAATTCGCGACGATC > NZ_CP009273/1934460‑1934629
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
