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 I228 R1
|
214 |
26.5 |
1448192 |
97.1% |
1406194 |
86.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,785,687 |
G→C |
G75G (GGC→GGG) |
kbl ← |
glycine C‑acetyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,785,687 | 0 | G | C | 100.0%
| 108.1
/ NA
| 33 | G75G (GGC→GGG) | kbl | glycine C‑acetyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (21/12); total (21/12) |
TTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAA > NZ_CP009273/3785603‑3785771
|
ttCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGaa > 1:216890/1‑90 (MQ=255)
cATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAAcc < 2:594393/90‑1 (MQ=255)
ccAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTgag > 1:425181/1‑90 (MQ=255)
cAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTgaga > 2:607046/1‑90 (MQ=255)
cAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTgaga > 1:324619/1‑90 (MQ=255)
cAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTgaga > 1:485088/1‑90 (MQ=255)
aGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGaa > 1:213467/1‑90 (MQ=255)
ggAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAAt > 2:229237/1‑90 (MQ=255)
gccgccAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCAtt > 1:603447/1‑90 (MQ=255)
gccAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTccc < 1:109126/90‑1 (MQ=255)
ttCAAGCTCTTTATGGCTGTCCGGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTgccgc < 1:499568/90‑1 (MQ=255)
cTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGga > 1:237183/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 2:664283/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 1:498917/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 2:6025/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 1:142658/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 1:69503/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCCTTGCCGCCGCAATCAGATCAGgatg > 1:94882/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACACACCGAAGCCTTCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 1:531794/1‑90 (MQ=255)
gAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCg > 1:200635/1‑90 (MQ=255)
gCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAg < 2:115992/90‑1 (MQ=255)
ccGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAatc > 1:124623/1‑69 (MQ=255)
ccGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAatc < 2:124623/69‑1 (MQ=255)
gCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGccc < 2:40094/90‑1 (MQ=255)
gCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGccc < 2:425181/90‑1 (MQ=255)
gCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGccc > 1:362874/1‑90 (MQ=255)
gCAAATAAAACACACCGAAGCCTTCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGccc < 2:531794/90‑1 (MQ=255)
aaTAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAatc > 2:548075/1‑64 (MQ=255)
aaTAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAatc < 1:548075/64‑1 (MQ=255)
tAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGAt < 2:237183/90‑1 (MQ=255)
ccGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTgg > 1:678822/1‑90 (MQ=255)
gCCATCCCGAACCCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACaa < 2:494233/90‑1 (MQ=255)
gCCATCCCGAAACCGTGAGAACCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACaa < 1:639133/90‑1 (MQ=255)
|
TTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAA > NZ_CP009273/3785603‑3785771
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 29 ≤ 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
GTAGAGAATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAAAAGTTAATGA > NZ_CP009273/3785588‑3785781
|
GTAGAGAATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATC > SRR3722112.123416/1‑100 (MQ=60)
GTAGAGAATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATC > SRR3722112.673756/1‑100 (MQ=60)
GAATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAA > SRR3722112.219501/1‑100 (MQ=60)
ATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAAC < SRR3722112.723536/100‑1 (MQ=60)
TCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAG > SRR3722112.430867/1‑100 (MQ=60)
CTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGA > SRR3722112.492061/1‑100 (MQ=60)
CTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGA > SRR3722112.328460/1‑100 (MQ=60)
TTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAA > SRR3722112.216043/1‑100 (MQ=60)
CCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATT > SRR3722112.612691/1‑100 (MQ=60)
GCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCG < SRR3722112.110482/100‑1 (MQ=60)
TTCAAGCTCTTTATGGCTGTCCGGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGA < SRR3722112.506807/100‑1 (MQ=60)
CTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGA > SRR3722112.240012/1‑100 (MQ=60)
tgtgtataagagacagGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGAT < SRR3722112.556337/84‑1 (MQ=60)
CTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATG > SRR3722112.144442/1‑100 (MQ=60)
CTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATG > SRR3722112.70348/1‑100 (MQ=60)
CTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATG > SRR3722112.506148/1‑100 (MQ=60)
CTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCCTTGCCGCCGCAATCAGATCAGGATG > SRR3722112.96065/1‑100 (MQ=60)
CTTTATGGCTGTCCTGAGTGCCGCAAATAAAACACACCGAAGCCTTCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATG > SRR3722112.539682/1‑100 (MQ=60)
TGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCG > SRR3722112.203071/1‑100 (MQ=60)
GTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATctgtctcttat > SRR3722112.126163/1‑89 (MQ=60)
CCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCC > SRR3722112.367524/1‑100 (MQ=60)
ATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGG > SRR3722112.689434/1‑100 (MQ=60)
CACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAAAAG > SRR3722112.126274/1‑100 (MQ=60)
CACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAAAAG > SRR3722112.119438/1‑100 (MQ=60)
AGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAAAAGTTAATG > SRR3722112.543481/1‑100 (MQ=60)
GCCATCCCGAAACCGTGAGAACCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAAAAGTTAATGA < SRR3722112.649062/100‑1 (MQ=60)
|
GTAGAGAATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAAAAGTTAATGA > NZ_CP009273/3785588‑3785781
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
