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 I206 R1
|
206 |
23.7 |
1314362 |
96.8% |
1272302 |
86.2 |
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%
| 45.2
/ NA
| 15 | T141P (ACT→CCT) | ybeT | tetratricopeptide repeat protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (7/8); total (7/8) |
TGTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGTATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCGGGTTTGACCCCCAGACCT > NZ_CP009273/674357‑674527
|
tgttTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGatat < 2:638816/90‑1 (MQ=255)
cGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATtgagcat > 1:606912/1‑90 (MQ=255)
cGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATtgagcat < 2:54108/90‑1 (MQ=255)
tttttGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTc > 1:392302/1‑90 (MQ=255)
agaTTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAgctgc < 1:315132/90‑1 (MQ=255)
agaTTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAgctgc < 2:580174/90‑1 (MQ=255)
tCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTcc > 2:534656/1‑90 (MQ=255)
aTAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCtt < 2:468280/90‑1 (MQ=255)
ttAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAAtt < 1:8902/90‑1 (MQ=255)
aaTACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTgagcatgagcat > 1:455395/1‑53 (MQ=255)
aaTACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTgagcatgagcat < 2:455395/53‑1 (MQ=255)
tGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACg > 1:87192/1‑90 (MQ=255)
tCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCGGGTTTGAccc > 2:591573/1‑90 (MQ=255)
aCCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCGGGTTTGACCCCCAg < 2:586976/90‑1 (MQ=255)
aaaGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCGGGTTTGACCCCCAGACCt > 2:545034/1‑90 (MQ=255)
|
TGTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGTATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCGGGTTTGACCCCCAGACCT > NZ_CP009273/674357‑674527
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TTTGTAATGTTGTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGTATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGG > NZ_CP009273/674347‑674504
|
TTTGTAATGTTGTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATAT < SRR3722088.214327/100‑1 (MQ=60)
GGTTGTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCAT > SRR3722088.614389/1‑100 (MQ=60)
GTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTC > SRR3722088.396515/1‑100 (MQ=60)
AGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATAC < SRR3722088.318313/100‑1 (MQ=60)
GGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCctgtctcttatacacatctccgagccc > SRR3722088.460713/1‑73 (MQ=60)
CATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACG > SRR3722088.88069/1‑100 (MQ=60)
TTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGG < SRR3722088.9015/100‑1 (MQ=60)
|
TTTGTAATGTTGTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGTATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGG > NZ_CP009273/674347‑674504
|
| 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: ‑ |
