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 F5 I102 R1
|
278 |
39.1 |
2251254 |
95.8% |
2156701 |
87.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
781,531 |
T→C |
I148T (ATC→ACC) |
aroG → |
3‑deoxy‑7‑phosphoheptulonate synthase AroG |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 781,531 | 0 | T | C | 100.0%
| 132.4
/ NA
| 38 | I148T (ATC→ACC) | aroG | 3‑deoxy‑7‑phosphoheptulonate synthase AroG |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (19/19); total (19/19) |
TCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGATCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGAACTGGCATC > NZ_CP009273/781444‑781618
|
tCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGGCAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCAc > 1:859066/1‑91 (MQ=255)
tCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCAc < 1:631153/91‑1 (MQ=255)
tCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCAc < 1:45617/91‑1 (MQ=255)
aaCGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCAccc < 1:204171/91‑1 (MQ=255)
aaCGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCAccc < 1:508276/91‑1 (MQ=255)
acgacgGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCAcccc > 2:731877/1‑91 (MQ=255)
gacgGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCcac < 2:42616/91‑1 (MQ=255)
ggTCTGCGTATAGCCCGTAACTTGCTGCTTGATATTAACGCCCGCGGTCTGCCAGCGGCAGGGGAGTTTCTCGATATGACCACCCCACAat > 2:1070381/1‑91 (MQ=255)
ggTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGGGAGTTTCTCGATATGACCACCCCACAat > 1:314500/1‑91 (MQ=255)
gTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGGGAGTTTCTCGATATGACCACCCCACAata > 2:489956/1‑91 (MQ=255)
gCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATAtctc > 1:480901/1‑91 (MQ=255)
gTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGc < 1:275367/91‑1 (MQ=255)
aGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTgcc > 1:926473/1‑89 (MQ=255)
cGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCtga > 1:505515/1‑91 (MQ=255)
cGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCtga > 2:1045236/1‑91 (MQ=255)
gTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCtgat > 1:753216/1‑91 (MQ=255)
gTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGGGAGTTTTTCGATATGACCACCCCCCAAAATCTCGCTGACCtgat > 2:687174/1‑91 (MQ=255)
tAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCtgatg < 2:265116/91‑1 (MQ=255)
aTTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGc < 1:128235/91‑1 (MQ=255)
ttGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCt < 1:772031/91‑1 (MQ=255)
gctTGATATTAACGACAGCGGTCTGCCAGCGGCAGGGGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGgc > 2:562515/1‑91 (MQ=255)
ttGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGgcgc < 1:562515/91‑1 (MQ=255)
tatTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAAtt < 1:852178/91‑1 (MQ=255)
cGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCa < 2:963736/91‑1 (MQ=255)
gACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCAc < 2:924337/91‑1 (MQ=255)
cAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGt > 2:493385/1‑91 (MQ=255)
cAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGt > 1:392519/1‑91 (MQ=255)
cAGCGGTCTGCCAGCGGCAGGGGAGTTTTTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGGGCAATTGGCGCACGt > 2:6068/1‑91 (MQ=255)
cAGCGGTCTGCCAGCGGCAGGGGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGt > 2:870434/1‑91 (MQ=255)
ggTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTacca > 2:233535/1‑91 (MQ=255)
ggTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTacca > 1:770183/1‑91 (MQ=255)
gTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTaccac > 1:944297/1‑91 (MQ=255)
tCTTCCAGCGGCAAGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTaccacc < 2:923182/91‑1 (MQ=255)
tCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTaccacc < 2:103066/91‑1 (MQ=255)
cTGCCAGCGGCAGGTGGGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCg > 2:214061/1‑91 (MQ=255)
cAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATc < 2:1021647/91‑1 (MQ=255)
ttCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGa > 1:511296/1‑91 (MQ=255)
cGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGAACTg < 2:480901/91‑1 (MQ=255)
atGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCATGTGCACCGCGAACTGGCAt < 1:1088395/91‑1 (MQ=255)
tGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGAACTGGCATc < 2:759665/91‑1 (MQ=255)
|
TCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGATCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGAACTGGCATC > NZ_CP009273/781444‑781618
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AGCTTCCAGATCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGATCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGAACTGGCATCAGGGCTTTC > NZ_CP009273/781434‑781627
|
AGCTTCCAGATCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGGCAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCAC > SRR3722125.878002/1‑101 (MQ=60)
gggctcggagatgtgtataagagacagGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCC < SRR3722125.439309/74‑1 (MQ=60)
agatgtgtataagagacagTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCC < SRR3722125.58212/82‑1 (MQ=60)
ataagagacaGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAAT < SRR3722125.73262/91‑1 (MQ=60)
GATCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAAT < SRR3722125.221044/101‑1 (MQ=60)
GATCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGGGAGTTTCTCGATATGACCACCCCACAAT > SRR3722125.320963/1‑101 (MQ=60)
TCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATAT < SRR3722125.46442/101‑1 (MQ=60)
TCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATAT < SRR3722125.644742/101‑1 (MQ=60)
AACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCT < SRR3722125.208201/101‑1 (MQ=60)
AACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCT < SRR3722125.519058/101‑1 (MQ=60)
ACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTC > SRR3722125.491042/1‑101 (MQ=60)
GTGTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGCC > SRR3722125.947040/1‑101 (MQ=60)
GCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGA > SRR3722125.516230/1‑101 (MQ=60)
CGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGAT > SRR3722125.769495/1‑101 (MQ=60)
GTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATG < SRR3722125.280931/101‑1 (MQ=60)
ATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAA < SRR3722125.130650/101‑1 (MQ=60)
TTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAAT < SRR3722125.788806/101‑1 (MQ=60)
TTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCA < SRR3722125.574552/101‑1 (MQ=60)
ATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGT > SRR3722125.400738/1‑101 (MQ=60)
TATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTA < SRR3722125.870950/101‑1 (MQ=60)
TAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCA > SRR3722125.786907/1‑101 (MQ=60)
AACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCAC > SRR3722125.965303/1‑101 (MQ=60)
GCAGGTGAGTTTCTCGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGA > SRR3722125.522146/1‑101 (MQ=60)
CGATATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGAACTGGCATCAGGGC > SRR3722125.725965/1‑101 (MQ=60)
ATGACCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCATGTGCACCGCGAACTGGCATCAGGGCTTTC < SRR3722125.1112891/101‑1 (MQ=60)
|
AGCTTCCAGATCAACGACGGTCTGCGTATAGCCCGTAAATTGCTGCTTGATATTAACGACAGCGGTCTGCCAGCGGCAGGTGAGTTTCTCGATATGATCACCCCACAATATCTCGCTGACCTGATGAGCTGGGGCGCAATTGGCGCACGTACCACCGAATCGCAGGTGCACCGCGAACTGGCATCAGGGCTTTC > NZ_CP009273/781434‑781627
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
