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 F3 I95 R1
|
196 |
14.2 |
808436 |
96.0% |
776098 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,004,326 |
T→G |
V256G (GTG→GGG) |
yigL → |
sugar/pyridoxal phosphate phosphatase YigL |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,004,326 | 0 | T | G | 100.0%
| 64.5
/ NA
| 20 | V256G (GTG→GGG) | yigL | sugar/pyridoxal phosphate phosphatase YigL |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (10/10); total (10/10) |
ATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAA > NZ_CP009273/4004247‑4004404
|
aTTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTAt < 1:40247/90‑1 (MQ=255)
gTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAAc > 1:326674/1‑90 (MQ=255)
tGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAAct < 1:73322/90‑1 (MQ=255)
cACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTAt > 2:123435/1‑90 (MQ=255)
gCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAActc < 1:204780/82‑1 (MQ=255)
gCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAActc > 2:204780/1‑82 (MQ=255)
gCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATc > 1:101007/1‑90 (MQ=255)
cGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAAt > 2:36100/1‑74 (MQ=255)
cGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAAt < 1:36100/74‑1 (MQ=255)
gAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGcc > 1:184605/1‑41 (MQ=255)
gAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGcc < 2:184605/41‑1 (MQ=255)
gCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGt < 2:292325/90‑1 (MQ=255)
gAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTc < 2:379235/90‑1 (MQ=255)
gATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCt > 1:327592/1‑90 (MQ=255)
gTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATAc < 2:327592/90‑1 (MQ=255)
aTGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCt > 2:235470/1‑90 (MQ=255)
cgacgaCGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTc > 2:141509/1‑70 (MQ=255)
cgacgaCGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTc < 1:141509/70‑1 (MQ=255)
cgacgaCGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACaa < 1:361190/90‑1 (MQ=255)
cgacgaCGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACaa > 2:324567/1‑90 (MQ=255)
|
ATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAA > NZ_CP009273/4004247‑4004404
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ 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
GCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGATACCCGTTAATCAAAGA > NZ_CP009273/4004245‑4004425
|
GCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCctgtctc > SRR3722235.99269/1‑93 (MQ=60)
ATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAAC > SRR3722235.331325/1‑100 (MQ=60)
ATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAAC < SRR3722235.40691/100‑1 (MQ=60)
GTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATC > SRR3722235.102191/1‑100 (MQ=60)
TGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCG < SRR3722235.74152/100‑1 (MQ=60)
GCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGT < SRR3722235.207294/100‑1 (MQ=60)
agacAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTAT < SRR3722235.36493/96‑1 (MQ=60)
CCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCtgtctcttatacacatctccgagcccacgagacaagag > SRR3722235.186753/1‑62 (MQ=60)
AGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCT > SRR3722235.332261/1‑100 (MQ=60)
taagagacaGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATAC < SRR3722235.143150/91‑1 (MQ=60)
CGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGATACCCG < SRR3722235.366382/100‑1 (MQ=60)
ACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGATACCCGTTAAT > SRR3722235.189180/1‑100 (MQ=60)
GGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGATACCCGTTAATCAAAGA > SRR3722235.184266/1‑100 (MQ=60)
|
GCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGATACCCGTTAATCAAAGA > NZ_CP009273/4004245‑4004425
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
