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 I211 R1
|
223 |
18.0 |
1007644 |
96.3% |
970361 |
85.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
674,442 |
T→G |
T141P (ACT→CCT) |
ybeT ← |
tetratricopeptide repeat protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 674,442 | 0 | T | G | 100.0%
| 78.5
/ NA
| 24 | T141P (ACT→CCT) | ybeT | tetratricopeptide repeat protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (12/12); total (12/12) |
GTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGTATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCGGGTTTGA > NZ_CP009273/674358‑674516
|
gttTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATAtt > 2:349354/1‑90 (MQ=255)
gttTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATAtt > 1:32266/1‑90 (MQ=255)
cGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATtgagcat < 1:381539/90‑1 (MQ=255)
cGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATtgagcat < 1:75925/90‑1 (MQ=255)
gTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTgagcatgagcat < 1:109224/90‑1 (MQ=255)
gTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTgagcatgagcat < 1:239149/90‑1 (MQ=255)
gTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTgagcatgagcat < 2:111008/90‑1 (MQ=255)
agaTTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAgctgc < 1:427375/90‑1 (MQ=255)
gaTTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAgctgct < 1:236520/90‑1 (MQ=255)
gaTTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAgctgct < 2:200473/90‑1 (MQ=255)
cATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCt < 1:387970/90‑1 (MQ=255)
aaTACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGc > 2:429448/1‑90 (MQ=255)
aaTACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGc > 1:180446/1‑90 (MQ=255)
cTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCag > 2:500007/1‑77 (MQ=255)
cTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCag < 1:500007/77‑1 (MQ=255)
cTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTAc > 2:309149/1‑90 (MQ=255)
cTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTAc > 2:372816/1‑90 (MQ=255)
tGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAgctgc < 2:176999/63‑1 (MQ=255)
tGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAgctgc > 1:176999/1‑63 (MQ=255)
tGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACg > 1:254848/1‑90 (MQ=255)
tGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACg > 1:193543/1‑90 (MQ=255)
tGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACg > 2:423192/1‑90 (MQ=255)
tttCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCg > 1:467789/1‑90 (MQ=255)
aGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCGGGTTTGa < 1:106017/90‑1 (MQ=255)
|
GTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGTATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCGGGTTTGA > NZ_CP009273/674358‑674516
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TTGTAATGTTGTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGTATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCGGGTTTGACCCCCAGACCTTTGAGG > NZ_CP009273/674348‑674533
|
TTGTAATGTTGTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATT > SRR3722094.32725/1‑100 (MQ=60)
TGTAATGTTGTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTG < SRR3722094.398078/100‑1 (MQ=60)
TGTAATGTTGTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTG < SRR3722094.184976/100‑1 (MQ=60)
CGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCC < SRR3722094.77006/100‑1 (MQ=60)
CGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCC < SRR3722094.388040/100‑1 (MQ=60)
GTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTC < SRR3722094.110800/100‑1 (MQ=60)
GTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTC < SRR3722094.242549/100‑1 (MQ=60)
AGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATAC < SRR3722094.434838/100‑1 (MQ=60)
GATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACC < SRR3722094.239869/100‑1 (MQ=60)
CATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAG < SRR3722094.394632/100‑1 (MQ=60)
GGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGC > SRR3722094.182930/1‑100 (MQ=60)
cagACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTT < SRR3722094.508823/97‑1 (MQ=60)
CATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCtgtctcttatacacat > SRR3722094.179454/1‑84 (MQ=60)
CATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACG > SRR3722094.258599/1‑100 (MQ=60)
CATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACG > SRR3722094.196182/1‑100 (MQ=60)
ACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCG > SRR3722094.476050/1‑100 (MQ=60)
AGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCGGGTTTGACCCCCAGACC < SRR3722094.107539/100‑1 (MQ=60)
ACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCGGGTTTGACCCCCAGACCTTTGAGG > SRR3722094.225502/1‑100 (MQ=60)
|
TTGTAATGTTGTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGTATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCGGGTTTGACCCCCAGACCTTTGAGG > NZ_CP009273/674348‑674533
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
