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 |
4,215,724 |
T→G |
W657G (TGG→GGG) |
metH → |
methionine synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,215,724 | 0 | T | G | 100.0%
| 87.2
/ NA
| 27 | W657G (TGG→GGG) | metH | methionine synthase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (7/20); total (7/20) |
AGCGTTTACTGGAGCTTGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGTGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGCAGGATACCGAAGAAGCCCGC > NZ_CP009273/4215641‑4215804
|
aGCGTTTACTGGAGCTTGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAg < 2:254034/90‑1 (MQ=255)
aGCGTTTACTGGAGCTTGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAg < 2:151099/90‑1 (MQ=255)
aCTGGAGCTTGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATaa < 1:131513/90‑1 (MQ=255)
aCTGGAGCTTGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATaa < 2:6824/90‑1 (MQ=255)
ttGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTgg < 1:156312/90‑1 (MQ=255)
ttGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTgg > 1:282654/1‑90 (MQ=255)
tGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGa > 2:612952/1‑90 (MQ=255)
tGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGa > 1:243259/1‑90 (MQ=255)
aaTATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGc < 1:517042/90‑1 (MQ=255)
gcgGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCa < 1:86109/90‑1 (MQ=255)
ggCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCaaa < 2:476048/90‑1 (MQ=255)
agcaAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGc < 2:169696/90‑1 (MQ=255)
gcaAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCa > 1:36574/1‑90 (MQ=255)
cgacACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGtt < 2:243259/90‑1 (MQ=255)
ccAACGCCCAGCAGGCGGAGTGGCGTTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGc < 2:322464/90‑1 (MQ=255)
ccAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGc < 2:240126/90‑1 (MQ=255)
ccAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGc < 2:94098/90‑1 (MQ=255)
ccAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGc < 1:238832/90‑1 (MQ=255)
ccAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGc < 2:282654/90‑1 (MQ=255)
ccAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGc < 2:226937/90‑1 (MQ=255)
ccAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGc < 1:362133/90‑1 (MQ=255)
aaCGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGCAg < 1:599116/90‑1 (MQ=255)
cagcagGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCACAGGCATTAcc < 2:581483/69‑1 (MQ=255)
cagcagGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTAcc > 1:581483/1‑69 (MQ=255)
aGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGCAGGATACCGAAGAAGccc > 1:299264/1‑90 (MQ=255)
aGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGCAGGATACCGAAGAAGccc < 1:51113/90‑1 (MQ=255)
tGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGCAGGATACCGAAGAAGCCCGc > 2:612887/1‑90 (MQ=255)
|
AGCGTTTACTGGAGCTTGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGTGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGCAGGATACCGAAGAAGCCCGC > NZ_CP009273/4215641‑4215804
|
| 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
TTACTGGAGCTTGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGTGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGCAGGATACCGAAGAAGCCCGCCAGCAGGCTACGCGCCCGA > NZ_CP009273/4215646‑4215823
|
TTACTGGAGCTTGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGG > SRR3722088.285378/1‑100 (MQ=60)
TACTGGAGCTTGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGA > SRR3722088.245648/1‑100 (MQ=60)
ACTGGAGCTTGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAA < SRR3722088.132886/100‑1 (MQ=60)
TTGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCT < SRR3722088.157888/100‑1 (MQ=60)
AATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGG < SRR3722088.523278/100‑1 (MQ=60)
TATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCA > SRR3722088.36957/1‑100 (MQ=60)
GCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTAC < SRR3722088.86971/100‑1 (MQ=60)
CGCCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGctgtctcttat > SRR3722088.588605/1‑89 (MQ=60)
CCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGCAGGATACCGA < SRR3722088.241189/100‑1 (MQ=60)
CCAACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGCAGGATACCGA < SRR3722088.365975/100‑1 (MQ=60)
AACGCCCAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGCAGGATACCGAAG < SRR3722088.606492/100‑1 (MQ=60)
CAGCAGGCGGAGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGCAGGATACCGAAGAAGCCC > SRR3722088.302190/1‑100 (MQ=60)
AGTGGCGCTCGGGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGCAGGATACCGAAGAAGCCCGCCAGCAGGC < SRR3722088.51657/100‑1 (MQ=60)
GGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGCAGGATACCGAAGAAGCCGGCCAGCAGGCTACGCGCCCGA > SRR3722088.609491/1‑100 (MQ=60)
|
TTACTGGAGCTTGCCGAGAAATATCGCGGCAGCAAAACCGACGACACCGCCAACGCCCAGCAGGCGGAGTGGCGCTCGTGGGAAGTGAATAAACGTCTGGAATACTCGCTGGTCAAAGGCATTACCGAGTTTATCGAGCAGGATACCGAAGAAGCCCGCCAGCAGGCTACGCGCCCGA > NZ_CP009273/4215646‑4215823
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
