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 F4 I88 R1
|
217 |
30.5 |
1742422 |
95.9% |
1670982 |
87.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
509,698 |
A→C |
T84P (ACG→CCG) |
cueR → |
Cu(I)‑responsive transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 509,698 | 0 | A | C | 100.0%
| 51.5
/ NA
| 15 | T84P (ACG→CCG) | cueR | Cu(I)‑responsive transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (7/8); total (7/8) |
GCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCACGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGA > NZ_CP009273/509610‑509776
|
gCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCg > 1:235150/1‑91 (MQ=255)
agagCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGa < 1:772942/91‑1 (MQ=255)
agCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAAc > 2:341017/1‑91 (MQ=255)
cggcgAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGa < 1:87373/91‑1 (MQ=255)
cggcgAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGa < 2:536116/91‑1 (MQ=255)
ggcgAGCTGTTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGac < 2:585548/91‑1 (MQ=255)
gTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTgagg < 1:315822/91‑1 (MQ=255)
tGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGGGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTgagga < 2:531278/91‑1 (MQ=255)
aCCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATgcg > 1:319130/1‑91 (MQ=255)
ccGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGcgcg > 1:442925/1‑91 (MQ=255)
ccGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGcgcg > 2:246343/1‑91 (MQ=255)
cGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGa < 1:28033/91‑1 (MQ=255)
gCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAgctg > 2:831560/1‑91 (MQ=255)
gcgcCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCCGCTGCTGGc > 1:761684/1‑91 (MQ=255)
gTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGa < 2:10267/91‑1 (MQ=255)
|
GCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCACGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGA > NZ_CP009273/509610‑509776
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCACGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGAATGCCTGCCCTGGCGATGAC > NZ_CP009273/509600‑509796
|
GCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCG > SRR3722118.239894/1‑101 (MQ=60)
GGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAG < SRR3722118.332697/101‑1 (MQ=60)
AGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATT < SRR3722118.789931/101‑1 (MQ=60)
CGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGG < SRR3722118.88985/101‑1 (MQ=60)
GTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATC < SRR3722118.322321/101‑1 (MQ=60)
CTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCG > SRR3722118.325692/1‑101 (MQ=60)
GTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCG > SRR3722118.452263/1‑101 (MQ=60)
CGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTG < SRR3722118.28549/101‑1 (MQ=60)
CAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCCGCTGCTGGC > SRR3722118.778416/1‑101 (MQ=60)
GTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCGGCTGCTGGCACTGGCGAATGCCTGCCC > SRR3722118.450453/1‑101 (MQ=60)
GCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGAATGCCTGCCCTGGCGATGAC < SRR3722118.478198/101‑1 (MQ=60)
GCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGAATGCCTGCCCTGGCGATGAC < SRR3722118.848902/101‑1 (MQ=60)
|
GCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCACGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGAATGCCTGCCCTGGCGATGAC > NZ_CP009273/509600‑509796
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
