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 |
1,065,426 |
T→G |
T129P (ACC→CCC) |
rutF ← |
pyrimidine utilization flavin reductase protein F |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,065,426 | 0 | T | G | 100.0%
| 69.0
/ NA
| 22 | T129P (ACC→CCC) | rutF | pyrimidine utilization flavin reductase protein F |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (12/10); total (12/10) |
ATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGTGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTCTG > NZ_CP009273/1065343‑1065510
|
aTAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGAc < 2:387031/90‑1 (MQ=255)
aTAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGAc < 2:321639/90‑1 (MQ=255)
cTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTc < 1:193897/90‑1 (MQ=255)
acCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATa > 1:362222/1‑90 (MQ=255)
gCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACgg < 1:274712/89‑1 (MQ=255)
gCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACgg > 2:274712/1‑89 (MQ=255)
ccGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGATGATACGGCAg > 2:179067/1‑90 (MQ=255)
gtgtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGAt < 1:398357/76‑1 (MQ=255)
gtgtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGAt > 2:398357/1‑76 (MQ=255)
tgtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGa < 2:362222/90‑1 (MQ=255)
gtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCaccacc < 2:604188/66‑1 (MQ=255)
gtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCaccacc > 1:604188/1‑66 (MQ=255)
gtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGaa > 1:165510/1‑90 (MQ=255)
tgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTc > 1:264431/1‑54 (MQ=255)
tgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTc < 2:264431/54‑1 (MQ=255)
aTGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCctc > 2:621318/1‑90 (MQ=255)
gAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCtt > 1:550985/1‑90 (MQ=255)
gCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGt < 2:162959/90‑1 (MQ=255)
gAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATc > 2:370838/1‑81 (MQ=255)
gAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATc < 1:370838/81‑1 (MQ=255)
tCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTc > 1:34769/1‑90 (MQ=255)
gTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGGAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTCTg > 1:404808/1‑90 (MQ=255)
|
ATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGTGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTCTG > NZ_CP009273/1065343‑1065510
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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
CTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGTGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTCTG > NZ_CP009273/1065347‑1065510
|
CTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGC < SRR3722088.195827/100‑1 (MQ=60)
ATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATA > SRR3722088.366065/1‑100 (MQ=60)
acagAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCA < SRR3722088.402676/96‑1 (MQ=60)
AGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACG < SRR3722088.277361/100‑1 (MQ=60)
CCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACctgtctcttataca > SRR3722088.611628/1‑86 (MQ=60)
CCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAA > SRR3722088.167184/1‑100 (MQ=60)
GGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCctgtctcttatacacatctccgagcc > SRR3722088.266993/1‑74 (MQ=60)
GTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTT > SRR3722088.557721/1‑100 (MQ=60)
CGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCC < SRR3722088.374770/100‑1 (MQ=60)
AAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTC > SRR3722088.35130/1‑100 (MQ=60)
ACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGGAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTCTG > SRR3722088.409239/1‑100 (MQ=60)
|
CTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGTGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTCTG > NZ_CP009273/1065347‑1065510
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
