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 I194 R1
|
197 |
32.2 |
1845014 |
95.2% |
1756453 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,678,723 |
A→C |
G48G (GGT→GGG) |
glyA ← |
serine hydroxymethyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,678,723 | 0 | A | C | 100.0%
| 108.6
/ NA
| 31 | G48G (GGT→GGG) | glyA | serine hydroxymethyltransferase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (16/15); total (16/15) |
GTTGTTCAACGATATCAACATACTCGCAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGAACCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACTTTTTCCTGC > NZ_CP009273/2678638‑2678807
|
gtttttAAAAGATATAACCATCCTCGCACCCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCt < 2:104799/90‑1 (MQ=255)
gttgttAAACGATATCATCATACCCGCACCCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCt < 2:163006/90‑1 (MQ=255)
tCAACGATATCAACATACTCGCAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGcc > 1:410437/1‑90 (MQ=255)
caacaaTACCAACATCCCCCAACCCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCt < 2:746251/90‑1 (MQ=255)
tACTCGCAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCggg > 2:583483/1‑90 (MQ=255)
aCTCGCAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGc > 1:336699/1‑90 (MQ=255)
gCAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGgt > 2:605091/1‑90 (MQ=255)
cAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGgtg < 1:221262/90‑1 (MQ=255)
aaaCCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGgtg < 1:718255/89‑1 (MQ=255)
ccgccgTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAg < 2:891055/90‑1 (MQ=255)
ccgccgTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAg < 2:886330/90‑1 (MQ=255)
gTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTc < 1:399822/82‑1 (MQ=255)
gTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTc > 2:399822/1‑82 (MQ=255)
gTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGa > 1:742644/1‑90 (MQ=255)
ttGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATc > 2:469084/1‑90 (MQ=255)
ttGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATc > 2:548173/1‑90 (MQ=255)
tAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGAtg < 1:806526/90‑1 (MQ=255)
cAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCtt > 1:85894/1‑90 (MQ=255)
aGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTc > 2:535581/1‑90 (MQ=255)
tatTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGa > 2:492442/1‑90 (MQ=255)
atTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGAc > 1:52978/1‑90 (MQ=255)
tttGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACg < 2:380757/90‑1 (MQ=255)
tgGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACtt > 1:533819/1‑90 (MQ=255)
tCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACttttt > 2:371696/1‑90 (MQ=255)
aGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACTTTTTcc < 2:156741/90‑1 (MQ=255)
aGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACTTTTTcc < 1:622964/90‑1 (MQ=255)
aGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACTTTTTcc < 2:85894/90‑1 (MQ=255)
gCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACTTTTTCCt < 2:436239/90‑1 (MQ=255)
gCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACTTTTTCCt < 1:669114/90‑1 (MQ=255)
tGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACTTTTTCCTGc > 2:152709/1‑90 (MQ=255)
tGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACTTTTTCCTGc > 1:813472/1‑90 (MQ=255)
|
GTTGTTCAACGATATCAACATACTCGCAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGAACCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACTTTTTCCTGC > NZ_CP009273/2678638‑2678807
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ 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
CGATCGATCGCCAGTTGTTCAACGATATCAACATACTCGCAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGAACCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACTTTTTCCTGCTCCATAGC > NZ_CP009273/2678625‑2678815
|
cgcggaggtgtataaaaaacacaaataccaaaatcctcgaAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACC < SRR3722072.36374/60‑1 (MQ=60)
cgatcgatccccgttttttaAACGATATAAACATCCTCGAAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACC < SRR3722072.59648/80‑1 (MQ=60)
CGATCGACCCCCAGTTGTTCAACAATATCAACATCCCCGCAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACC < SRR3722072.559984/100‑1 (MQ=60)
CGCCAGTTGTTCAACGATATCAACATACTCGCAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCC > SRR3722072.417866/1‑100 (MQ=60)
tttttcaacgaaaaacaacacaccccCAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCAT < SRR3722072.169617/74‑1 (MQ=60)
aaaacaATATCAACATCCCCGCAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGC < SRR3722072.308927/94‑1 (MQ=60)
ATATCAACATACTCGCAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGC > SRR3722072.342629/1‑100 (MQ=60)
CAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGG < SRR3722072.225020/100‑1 (MQ=60)
AAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGG < SRR3722072.731036/100‑1 (MQ=60)
CCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGA > SRR3722072.755787/1‑100 (MQ=60)
GTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATC < SRR3722072.407032/100‑1 (MQ=60)
GGATAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTT > SRR3722072.87493/1‑100 (MQ=60)
TAACCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCT < SRR3722072.820592/100‑1 (MQ=60)
CCTTCAGCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGAC > SRR3722072.53947/1‑100 (MQ=60)
GCATATTTGTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACTT > SRR3722072.543434/1‑100 (MQ=60)
GTTGGTCAGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACTTTTTCCTGC > SRR3722072.827643/1‑100 (MQ=60)
AGCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACTTTTTCCTGCTCCATAG < SRR3722072.634082/100‑1 (MQ=60)
GCTGAGACCCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACTTTTTCCTGCTCCATAGC < SRR3722072.681080/100‑1 (MQ=60)
|
CGATCGATCGCCAGTTGTTCAACGATATCAACATACTCGCAACCGCCGTAGTAGCGTTTGCCCGGATAACCTTCAGCATATTTGTTGGTCAGCTGAGAACCCTGCGCCTGCATTACGCGCGGGCTGGTGTAGTTTTCGGAGGCGATCAGTTCGATGTGCTCTTCCTGACGTACTTTTTCCTGCTCCATAGC > NZ_CP009273/2678625‑2678815
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
