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 F5 I102 R1
|
278 |
39.1 |
2251254 |
95.8% |
2156701 |
87.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
469,392 |
T→C |
L324P (CTC→CCC) |
amtB → |
ammonium transporter AmtB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 469,392 | 0 | T | C | 100.0%
| 104.6
/ NA
| 30 | L324P (CTC→CCC) | amtB | ammonium transporter AmtB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (12/18); total (12/18) |
AGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCTCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTA > NZ_CP009273/469309‑469466
|
aGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGc > 2:136013/1‑91 (MQ=255)
tGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTTCCCAGCCCAAACGCTtgc > 2:1078043/1‑91 (MQ=255)
gCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTtgct > 1:936929/1‑91 (MQ=255)
cGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTtgctg < 1:1114683/91‑1 (MQ=255)
ggCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTtgctgc < 1:478450/91‑1 (MQ=255)
cTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCgg < 1:183539/91‑1 (MQ=255)
tACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCggg > 1:688012/1‑91 (MQ=255)
aTTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTgg > 2:1019264/1‑91 (MQ=255)
tGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGgat < 2:936929/91‑1 (MQ=255)
ggggTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGgatg < 2:705376/91‑1 (MQ=255)
ggggTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGgatg < 1:618514/91‑1 (MQ=255)
ggggTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGgatg < 1:259112/91‑1 (MQ=255)
ggcgCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCg < 1:76149/91‑1 (MQ=255)
gcgcGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGCGGATGATCCCTGCGa > 1:78666/1‑91 (MQ=255)
cgcgTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGAt < 2:1083547/91‑1 (MQ=255)
gTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTc < 1:276261/91‑1 (MQ=255)
tGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCtt < 2:425126/91‑1 (MQ=255)
aTTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCg < 2:335314/91‑1 (MQ=255)
tATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGgt < 2:8566/91‑1 (MQ=255)
gTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACg > 1:736539/1‑91 (MQ=255)
ggTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGc > 2:1059296/1‑91 (MQ=255)
gTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTgg < 2:1110637/91‑1 (MQ=255)
tttGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGc > 1:790579/3‑91 (MQ=255)
tCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGc > 2:377817/1‑91 (MQ=255)
ggCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCAtt < 1:288397/91‑1 (MQ=255)
gggCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTc < 1:1019264/91‑1 (MQ=255)
gCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGGGTTTGTGGCATTGTCgg > 2:301982/1‑91 (MQ=255)
gCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCgg > 2:51848/1‑91 (MQ=255)
cTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGc < 2:193386/91‑1 (MQ=255)
cTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGc < 1:377817/91‑1 (MQ=255)
tgGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTa > 2:77035/1‑91 (MQ=255)
|
AGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCTCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTA > NZ_CP009273/469309‑469466
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
ACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCTCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCATGACCGGGATTTTTGCCGCCA > NZ_CP009273/469304‑469490
|
ACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCT > SRR3722125.957729/1‑101 (MQ=60)
AGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGG > SRR3722125.702846/1‑101 (MQ=60)
CGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATG < SRR3722125.1139844/101‑1 (MQ=60)
GGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGA < SRR3722125.488546/101‑1 (MQ=60)
CTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATC < SRR3722125.187107/101‑1 (MQ=60)
GGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGA < SRR3722125.264325/101‑1 (MQ=60)
GGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGA < SRR3722125.631850/101‑1 (MQ=60)
GGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGCGGATGATCCCTGCGA > SRR3722125.80126/1‑101 (MQ=60)
GGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGG < SRR3722125.77562/101‑1 (MQ=60)
GTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGC < SRR3722125.281845/101‑1 (MQ=60)
TTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTgtctcttatacacatctccgagcccacgagactaggcatg > SRR3722125.993462/1‑61 (MQ=60)
catgcctagtctcgtgggctcggagatgtgtataagagacaGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCAC < SRR3722125.337292/60‑1 (MQ=60)
GATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACG > SRR3722125.752419/1‑101 (MQ=60)
TGGTAGCTGGTTTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGC > SRR3722125.807822/1‑101 (MQ=60)
GGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTA < SRR3722125.294270/101‑1 (MQ=60)
GGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCA < SRR3722125.1042101/101‑1 (MQ=60)
CTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCATGA < SRR3722125.385736/101‑1 (MQ=60)
GCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCATGACCGGGATT > SRR3722125.168547/1‑101 (MQ=60)
ACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCATGACCGGGATTTTTGC > SRR3722125.78187/1‑101 (MQ=60)
GCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCATGACCGGGATTTTTGCCGCCA > SRR3722125.179955/1‑101 (MQ=60)
|
ACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCTCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCATGACCGGGATTTTTGCCGCCA > NZ_CP009273/469304‑469490
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
