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 |
|
A0 F0 I1 R1
|
61 |
39.0 |
4165548 |
97.4% |
4057243 |
49.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_017635 |
2,753,670 |
A→G |
W20R (TGG→CGG) |
ypfG ← |
DUF1176 domain‑containing protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_017635 | 2,753,670 | 0 | A | G | 100.0%
| 108.1
/ NA
| 28 | W20R (TGG→CGG) | ypfG | DUF1176 domain‑containing protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (24/4); total (24/4) |
ACAGGTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCACACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATG > NC_017635/2753623‑2753716
|
aCAGGTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCcgca > 1:1750882/1‑50 (MQ=255)
cAGGTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCgcac > 2:1673293/1‑50 (MQ=255)
aGGTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCgcac > 2:1033080/1‑49 (MQ=255)
ggTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCAcc > 1:1548231/1‑49 (MQ=255)
gACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCa > 1:491979/1‑47 (MQ=255)
gACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCa > 1:601674/1‑47 (MQ=255)
tGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGt > 1:1423768/1‑50 (MQ=255)
tGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGt > 2:351322/1‑50 (MQ=255)
tGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGt > 2:217418/1‑50 (MQ=255)
tGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGt > 1:42776/1‑50 (MQ=255)
gCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTc > 1:553616/1‑50 (MQ=255)
cAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCgg > 1:328367/1‑50 (MQ=255)
aGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCgg > 2:1624905/1‑49 (MQ=255)
aGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGc < 1:1879315/50‑1 (MQ=255)
tCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGcaa > 2:793526/1‑50 (MQ=255)
cGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGcaa > 2:767844/1‑49 (MQ=255)
cGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGa < 1:940325/50‑1 (MQ=255)
gCCCGTTGCGTTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGa > 2:396692/1‑49 (MQ=38)
gCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGa > 2:1142214/1‑49 (MQ=255)
cGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGaaaa > 2:487038/1‑49 (MQ=255)
ttGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGaaaaaa > 2:1195751/1‑49 (MQ=255)
ttGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGaaaaaa > 2:1392524/1‑49 (MQ=255)
cTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAagag > 2:1052466/1‑49 (MQ=255)
tGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAagag > 1:868705/1‑48 (MQ=255)
ggTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAg > 1:782820/1‑50 (MQ=255)
gTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAg < 2:220549/49‑1 (MQ=255)
gTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAg > 1:204520/1‑49 (MQ=255)
gTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAg < 2:672223/49‑1 (MQ=255)
gccgccCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGa > 1:40007/1‑49 (MQ=255)
gccCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAAt > 1:776935/1‑50 (MQ=255)
cccGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATg > 1:1073741/1‑50 (MQ=255)
|
ACAGGTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCACACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATG > NC_017635/2753623‑2753716
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TTACAGGTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCACACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCG > NC_017635/2753621‑2753718
|
TTACAGGTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGC > M01420:85:000000000‑AC936:1:2110:26201:11016/1‑51 (MQ=60)
ACAGGTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCAC > M01420:85:000000000‑AC936:1:2110:25017:19267/1‑51 (MQ=60)
GGTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCA > M01420:85:000000000‑AC936:1:2107:22765:27426/1‑50 (MQ=60)
GACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAA > M01420:85:000000000‑AC936:1:1107:16695:18061/1‑48 (MQ=60)
GACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAA > M01420:85:000000000‑AC936:1:1109:9049:6453/1‑48 (MQ=60)
TGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTC > M01420:85:000000000‑AC936:1:1101:28409:17010/1‑51 (MQ=60)
TGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTC > M01420:85:000000000‑AC936:1:2106:10458:10603/1‑51 (MQ=60)
GCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCG > M01420:85:000000000‑AC936:1:1108:26878:14584/1‑51 (MQ=60)
CAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGC < M01420:85:000000000‑AC936:1:2112:8482:12539/51‑1 (MQ=60)
CAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGC > M01420:85:000000000‑AC936:1:1105:4606:13544/1‑51 (MQ=60)
CGGAAAACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGcatta < M01420:85:000000000‑AC936:1:2113:15477:28132/50‑6 (MQ=60)
ACGCCCGTTGCGCTGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGA < M01420:85:000000000‑AC936:1:1113:15411:20586/51‑1 (MQ=60)
TGGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGA > M01420:85:000000000‑AC936:1:1112:26530:21339/1‑49 (MQ=60)
GGTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGG > M01420:85:000000000‑AC936:1:1111:14818:17458/1‑51 (MQ=60)
GTGCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGG > M01420:85:000000000‑AC936:1:1103:28492:20964/1‑50 (MQ=60)
GCCGCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAA > M01420:85:000000000‑AC936:1:1101:2554:16190/1‑50 (MQ=60)
GCCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATG > M01420:85:000000000‑AC936:1:1111:17765:15709/1‑51 (MQ=60)
CCCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGC > M01420:85:000000000‑AC936:1:2101:5408:16470/1‑51 (MQ=60)
CCGCACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCG > M01420:85:000000000‑AC936:1:2101:2827:19263/1‑51 (MQ=60)
|
TTACAGGTGACCTGCCAGTCGGAAAACGCCCGTTGCGCTGGTGCCGCCCACACCAAAGACGTCGGCAACAAAGCGAAAAAAAAGAGAAGGAAAATGCG > NC_017635/2753621‑2753718
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
