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 |
951,809 |
T→G |
T94P (ACC→CCC) |
ycaO ← |
30S ribosomal protein S12 methylthiotransferase accessory factor YcaO |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 951,809 | 0 | T | G | 100.0%
| 97.6
/ NA
| 29 | T94P (ACC→CCC) | ycaO | 30S ribosomal protein S12 methylthiotransferase accessory factor YcaO |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (17/12); total (17/12) |
GAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGTTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGAGTGCAGAAGCCAGCGCCGCTTT > NZ_CP009273/951723‑951893
|
gAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTc > 2:1152526/1‑90 (MQ=255)
cagcCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGcc < 1:59430/90‑1 (MQ=255)
cagcCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGcc < 1:667104/90‑1 (MQ=255)
agcCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGccc > 1:1171850/1‑90 (MQ=255)
agcCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGccc > 1:562975/1‑90 (MQ=255)
agcCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGccc > 1:630660/1‑90 (MQ=255)
caTCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCg > 2:1221246/1‑90 (MQ=255)
aTCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGc > 2:335245/1‑90 (MQ=255)
ggTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAgtt < 2:1080982/90‑1 (MQ=255)
ggTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAgtt < 2:396011/90‑1 (MQ=255)
ggTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAgtt < 1:111558/90‑1 (MQ=255)
ggTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAgtt < 1:991678/90‑1 (MQ=255)
ggTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAgtt < 1:731487/90‑1 (MQ=255)
ggTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAgtt > 1:15317/1‑90 (MQ=255)
gTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAgttg > 2:637289/1‑90 (MQ=255)
gTGGGAACCATTTTTCGTTGGGATAATGCACGAATGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAgttggttg > 2:530940/1‑90 (MQ=255)
cATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGc < 2:671784/90‑1 (MQ=255)
tttttCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTc > 1:884173/1‑90 (MQ=255)
tttttCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTc > 1:18629/1‑90 (MQ=255)
ttCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGaa < 1:837615/90‑1 (MQ=255)
tAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCg < 1:95873/90‑1 (MQ=255)
ggACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGAGTGCAGAAGcc > 1:704954/1‑90 (MQ=255)
gACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGAGTGCAGAAGCCa > 2:596016/1‑90 (MQ=255)
gTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGAGTGCAGAAGCCAgcgc > 2:495917/1‑90 (MQ=255)
gTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGAGTGCAGAAGCCAgcgc < 2:51167/90‑1 (MQ=255)
tGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGAGTGCAGAAGCCAGcgccg > 2:1121094/1‑90 (MQ=255)
gATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGAGTGCAGAAGCCAGCGCCGCttt > 2:278258/1‑90 (MQ=255)
gATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGAGTGCAGAAGCCAGCGCCGCttt > 2:261983/1‑90 (MQ=255)
tGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGaa < 2:283921/55‑1 (MQ=255)
|
GAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGTTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGAGTGCAGAAGCCAGCGCCGCTTT > NZ_CP009273/951723‑951893
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ 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
GTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGTTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGAGTGCAGAAGCCAGCGCCGCTTTCTTGGTTGCGCCT > NZ_CP009273/951717‑951906
|
GTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCC > SRR3722089.1189688/1‑100 (MQ=60)
GTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCC > SRR3722089.638668/1‑100 (MQ=60)
GTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCC > SRR3722089.569566/1‑100 (MQ=60)
CAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAG < SRR3722089.675727/100‑1 (MQ=60)
CAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAG < SRR3722089.60157/100‑1 (MQ=60)
CGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTT > SRR3722089.15510/1‑100 (MQ=60)
GGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGA < SRR3722089.112925/100‑1 (MQ=60)
GGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGA < SRR3722089.741004/100‑1 (MQ=60)
GGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGA < SRR3722089.1006392/100‑1 (MQ=60)
GTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTC > SRR3722089.18866/1‑100 (MQ=60)
GTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTC > SRR3722089.896913/1‑100 (MQ=60)
TTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCG < SRR3722089.849472/100‑1 (MQ=60)
TAATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGAGTGCAGAAG < SRR3722089.97064/100‑1 (MQ=60)
ATGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGAGTGCAGAAGCC > SRR3722089.714139/1‑100 (MQ=60)
TGCACGAACGGACCGTTGGCGATGGGTTCGCCCAGCCAGAAGctgtctcttatacacatctgacgctgccgacgaccatcttagtgtagatctcggtggt > SRR3722089.411593/1‑42 (MQ=60)
CCGTTGGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGctgtctcttatacacatctgacgct > SRR3722089.287556/1‑75 (MQ=60)
GGCGATGGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGAGTGCAGAAGCCAGCGCCGCTTTCTTGGTT > SRR3722089.319084/1‑100 (MQ=60)
GGGTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGAGTGCAGAAGCtgtctcttatacacatctgacgctg > SRR3722089.535817/1‑75 (MQ=60)
|
GTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTCGTTGGGATAATGCACGAACGGACCGTTGGCGATGGTTTCGCCCAGCCAGAAGTCCGCAAAAAAGTAGTTGGTTGAGAGACGCTCGAAATATTCACCGAGTGCAGAAGCCAGCGCCGCTTTCTTGGTTGCGCCT > NZ_CP009273/951717‑951906
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
