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 |
|
A2 F5 I184 R1
|
278 |
29.6 |
1166432 |
97.3% |
1134938 |
124.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,068,442 |
A→C |
G323G (GGT→GGG) |
rutA ← |
pyrimidine utilization protein A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,068,442 | 0 | A | C | 100.0%
| 86.6
/ NA
| 26 | G323G (GGT→GGG) | rutA | pyrimidine utilization protein A |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (12/14); total (12/14) |
TCATCATGCCACCTCCTGAGTCAGCGCAGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCACCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCATATTGATGTTTACCGCCGAAGTGGGATCGGCCATCTGACGAACGTTGGTGTCAGTACCG > NZ_CP009273/1068316‑1068568
|
tcatcaTGCCACCTCCTGAGTCAGCGCAGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCtt > 2:5546/1‑139 (MQ=255)
atGCCACCTCCTGAGTCAGCGCAGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGAc > 1:285564/1‑139 (MQ=255)
aGTCAGCGCAGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACa < 1:276702/137‑1 (MQ=255)
aGCGCAGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATgcgcg < 2:291418/139‑1 (MQ=255)
aGCGCAGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATgcgcg > 2:225174/1‑139 (MQ=255)
aGCGCAGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATgcgcg > 2:155047/1‑139 (MQ=255)
cgcAGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATgcgcgc > 1:497915/1‑138 (MQ=255)
ggTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGacac < 1:5546/139‑1 (MQ=255)
gcgcGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGt > 1:449922/1‑136 (MQ=255)
gcgGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACt < 2:96688/129‑1 (MQ=255)
gcgGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACt < 2:263049/129‑1 (MQ=255)
gcgGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACt > 1:96688/1‑129 (MQ=255)
gcgGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACt > 1:263049/1‑129 (MQ=255)
cATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTaa < 2:285564/138‑1 (MQ=255)
cATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTaa < 2:330873/138‑1 (MQ=255)
aTCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACg < 1:183983/139‑1 (MQ=255)
gTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACt > 1:385840/1‑115 (MQ=255)
gTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACt < 2:385840/115‑1 (MQ=255)
gTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCa > 1:288643/1‑138 (MQ=255)
gTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCa < 2:449922/138‑1 (MQ=255)
cgcTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTccc > 1:387639/1‑128 (MQ=255)
cgcTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTccc < 2:387639/128‑1 (MQ=255)
aTTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCATATTGATGTTTACCGCCGAAGTGGGAt < 2:311661/139‑1 (MQ=255)
gAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCATATTGATGTTTACCGCCGAAGTGGGATCGGCCATCTGACGAACGtt < 1:503369/138‑1 (MQ=255)
gAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCATATTGATGTTTACCGCCGAAGTGGGATCGGCCATCTGACGAACGtt < 2:288643/138‑1 (MQ=255)
cGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCATATTGATGTTTACCGCCGAAGTGGGATCGGCCATCTGACGAACGTTGGTGTCAGTACCg > 2:382761/1‑137 (MQ=255)
|
TCATCATGCCACCTCCTGAGTCAGCGCAGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCACCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCATATTGATGTTTACCGCCGAAGTGGGATCGGCCATCTGACGAACGTTGGTGTCAGTACCG > NZ_CP009273/1068316‑1068568
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AGGTCGTCATCATGCCACCTCCTGAGTCAGCGCAGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCACCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCATATTGATGTTTACCGCCGAAGTGGGATCGGCCATCTGACGAACGTTGGTGTCAGTACCGGAGCGGGTATCTTTCTGACTTT > NZ_CP009273/1068310‑1068590
|
AGGTCGTCATCATGCCACCTCCTGAGTCAGCGCAGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACT > SRR3722139.289154/1‑151 (MQ=60)
TCCTGAGTCAGCGCAGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCG > SRR3722139.503679/1‑150 (MQ=60)
GAGTCAGCGCAGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACA < SRR3722139.280196/149‑1 (MQ=60)
CAGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTA > SRR3722139.455194/1‑148 (MQ=60)
AGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAA < SRR3722139.5600/151‑1 (MQ=60)
GGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAAC > SRR3722139.266350/1‑151 (MQ=60)
GGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAAC > SRR3722139.97832/1‑151 (MQ=60)
GCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCtgtctcttatac > SRR3722139.390433/1‑138 (MQ=60)
TTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCAT > SRR3722139.292286/1‑150 (MQ=60)
CATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCATATTG < SRR3722139.186257/151‑1 (MQ=60)
GTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCATATTGATGTC > SRR3722139.392247/1‑151 (MQ=60)
CGAAGGTTAACAGCACGCCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCATATTGATGTTTACCGCCGAAGTGGGATCGGCCATCTGACGAACGTTGGTGTCAGTAC < SRR3722139.509179/150‑1 (MQ=60)
CCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCATATTGATGTTTACCGCCGAAGTGGGATCGGCCATCTGACGAACGTTGGTGTCAGTACCGGAGCGGGTATCTTTCT > SRR3722139.271515/1‑151 (MQ=60)
CCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCATATTGATGTTTACCGCCGAAGTGGGATCGGCCATCTGACGAACGTTGGTGTCAGTACCGGAGCGGGTATCTTTCT > SRR3722139.462731/1‑151 (MQ=60)
CCTTCGGCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCATATTGATGTTTACCGCCGAAGTGGGATCGGCCATCTGACGAACGTTGGTGTCAGTACCGGAGCGGGTATCTTTCT > SRR3722139.498483/1‑151 (MQ=60)
GCCCCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCATATTGATGTTTACCGCCGAAGTGGGATCGGCCATCTGACGAACGTTGGTGTCAGTACCGGAGCGGGTATCTTTCTGACTTT > SRR3722139.476474/1‑151 (MQ=60)
|
AGGTCGTCATCATGCCACCTCCTGAGTCAGCGCAGGTAGATGGGCGCGGCATTGCATCAGTGGTTGAATGCGCTCGCCGAAGGTTTCGATTCCCGACAGAAAATCGTCGAAGGTTAACAGCACGCCTTCGGCACCAGGCACGCTTGCGACTTCATCTAACATGCGCGCGACACTGGCGTAAGAACCGACTAACGTCCCCATATTGATGTTTACCGCCGAAGTGGGATCGGCCATCTGACGAACGTTGGTGTCAGTACCGGAGCGGGTATCTTTCTGACTTT > NZ_CP009273/1068310‑1068590
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
