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 I207 R1
|
218 |
45.0 |
2482936 |
97.1% |
2410930 |
86.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,717,498 |
G→C |
G374A (GGC→GCC) |
ydhK → |
FUSC family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,717,498 | 0 | G | C | 100.0%
| 151.8
/ NA
| 44 | G374A (GGC→GCC) | ydhK | FUSC family protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (26/18); total (26/18) |
CACGGACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGGCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGTACTCTACTC > NZ_CP009273/1717411‑1717576
|
cACGGACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGccg < 2:651269/90‑1 (MQ=255)
ggACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCAt < 1:224937/90‑1 (MQ=255)
ggACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCAt < 2:1157475/90‑1 (MQ=255)
ggACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCAt < 1:829439/90‑1 (MQ=255)
cATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGa > 2:291352/1‑90 (MQ=255)
cATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGa > 2:127880/1‑90 (MQ=255)
cATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGa > 1:244590/1‑90 (MQ=255)
tCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGt > 2:231361/1‑90 (MQ=255)
tCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGt > 1:914632/1‑90 (MQ=255)
ggCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTAtt < 2:914632/90‑1 (MQ=255)
gCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTg > 1:719040/1‑90 (MQ=255)
cTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCAt > 1:1151710/1‑79 (MQ=255)
cTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCAt < 2:1151710/79‑1 (MQ=255)
gTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAAt < 1:101571/90‑1 (MQ=255)
gTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAAt > 2:322370/1‑90 (MQ=255)
tACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGa < 1:471782/90‑1 (MQ=255)
tACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGa > 2:471782/1‑90 (MQ=255)
tAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCgg > 1:710781/1‑90 (MQ=255)
tAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCgg > 1:275002/1‑90 (MQ=255)
cGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCaa < 2:150245/90‑1 (MQ=255)
aaGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGcc > 2:830888/1‑80 (MQ=255)
aaGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGcc < 1:830888/80‑1 (MQ=255)
tgGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACg < 1:1181097/90‑1 (MQ=255)
gAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCt > 1:365632/1‑90 (MQ=255)
gAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCt > 1:682974/1‑90 (MQ=255)
gCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTgg > 1:846782/1‑90 (MQ=255)
cGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTAt < 2:525091/48‑1 (MQ=255)
cGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTAt > 1:525091/1‑48 (MQ=255)
gggCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGgca > 2:217471/1‑90 (MQ=255)
ggCTGCGTACATTTTGTACGTTGATGATGATTGCCGCAt < 2:413787/39‑1 (MQ=39)
ggCTGCGTACATTTTGTACGTTGATGATGATTGCCGCAt > 1:413787/1‑39 (MQ=39)
ggCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGgcag < 2:1135507/90‑1 (MQ=255)
cTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGgcagca > 2:1181001/1‑90 (MQ=255)
cTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGgcagca > 1:1046335/1‑90 (MQ=255)
aTTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTg < 1:231361/90‑1 (MQ=255)
aTTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTg > 2:543135/1‑90 (MQ=255)
aTTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTg > 2:569073/1‑90 (MQ=255)
aTTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTg < 1:431080/90‑1 (MQ=255)
tttGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCGGCAATTAGCTGCg < 2:846782/90‑1 (MQ=255)
tGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGta > 1:615385/1‑90 (MQ=255)
gTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGtac < 2:306236/90‑1 (MQ=255)
gTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGtac < 1:314951/90‑1 (MQ=255)
gTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGtactcta > 2:450434/1‑90 (MQ=255)
tgatgatgaTTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGtactctact > 2:1087060/1‑90 (MQ=255)
gatgatgatTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGtactctactc > 1:256810/1‑90 (MQ=255)
|
CACGGACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGGCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGTACTCTACTC > NZ_CP009273/1717411‑1717576
|
| 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
TACCAGACTCCCACGGACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGGCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGTACTCTACTCCGCCGTCGCAGCACCGTTT > NZ_CP009273/1717400‑1717595
|
TACCAGACTCCCACGGACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCC > SRR3722089.323940/1‑100 (MQ=60)
CTCCCACGGACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGA > SRR3722089.247703/1‑100 (MQ=60)
TCCCACGGACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAG < SRR3722089.999720/100‑1 (MQ=60)
CCCACGGACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGT > SRR3722089.927952/1‑100 (MQ=60)
CGGACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTG > SRR3722089.728389/1‑100 (MQ=60)
GGACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGC < SRR3722089.227795/100‑1 (MQ=60)
GGACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGC < SRR3722089.841156/100‑1 (MQ=60)
GACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCC > SRR3722089.1169243/1‑100 (MQ=60)
GTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGG > SRR3722089.278506/1‑100 (MQ=60)
GTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGG > SRR3722089.720034/1‑100 (MQ=60)
GTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGG < SRR3722089.102836/100‑1 (MQ=60)
TACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCC < SRR3722089.477418/100‑1 (MQ=60)
GATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATG < SRR3722089.842625/100‑1 (MQ=60)
AAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCT > SRR3722089.370137/1‑100 (MQ=60)
AAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCT > SRR3722089.691843/1‑100 (MQ=60)
GCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGG > SRR3722089.858826/1‑100 (MQ=60)
CTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAActgtctcttatacacatctgacgctgccgacg > SRR3722089.531230/1‑68 (MQ=60)
ATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCctgtctcttatacacatctgacgctgccgacgaccatctta > SRR3722089.418795/1‑59 (MQ=60)
GTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCA > SRR3722089.1062018/1‑100 (MQ=60)
TGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAA < SRR3722089.1199087/100‑1 (MQ=60)
GCGTACATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGTA > SRR3722089.623076/1‑100 (MQ=60)
ATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGTACTCTAC < SRR3722089.436265/100‑1 (MQ=60)
ATTTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGTACTCTAC < SRR3722089.234297/100‑1 (MQ=60)
TTTGTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGTACTCTACTC > SRR3722089.260104/1‑100 (MQ=60)
GTACGTTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGTACTCTACTCCGC < SRR3722089.318940/100‑1 (MQ=60)
TTGATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCctgtctcttatacacatctgacgctgccgacgacca > SRR3722089.924165/1‑64 (MQ=60)
GATGATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGTACTCTACTCCGCCGTCGCA > SRR3722089.569034/1‑100 (MQ=60)
GATGATTGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGTACTCTACTCCGCCGTCGCAGCA > SRR3722089.783401/1‑100 (MQ=60)
TGCCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGTACTCTACTCCGCCGTCGCAGCACCGTTT < SRR3722089.909588/100‑1 (MQ=60)
|
TACCAGACTCCCACGGACATCCGGCCTGGCTCGTCATACCGATAACGCCGAAGCTATGTGGAGCGGGCTGCGTACATTTTGTACGTTGATGATGATTGGCGCATGGAGTATTGCTTCGCAATGGGATGCCGGTGCCAATGCATTAACGCTGGCAGCAATTAGCTGCGTACTCTACTCCGCCGTCGCAGCACCGTTT > NZ_CP009273/1717400‑1717595
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
