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 I175 R1
|
221 |
18.5 |
1047116 |
95.1% |
995807 |
84.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,616,816 |
T→C |
V363A (GTC→GCC) |
radA → |
DNA repair protein RadA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,616,816 | 0 | T | C | 100.0%
| 105.5
/ NA
| 30 | V363A (GTC→GCC) | radA | DNA repair protein RadA |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (15/15); total (15/15) |
AAACCGTCTGGCAATCCTGCTGGCTGTGTTGCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGTCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTCCAGCCTGCGCGACAGACCGCTGCCGC > NZ_CP009273/4616733‑4616902
|
aaaCCGTCTGGCAATCCTGCTGGCTGTGTTGCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCcggcgg > 2:344459/1‑90 (MQ=255)
aaaCCGTCTGGCAATCCTGCTGGCTGTGTTGCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCcggcgg > 1:462507/1‑90 (MQ=255)
cGTCTGGCAATCCTGCTGGCTGTGTTGCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTg < 2:400314/90‑1 (MQ=255)
ggCAATCCTGCTGGCTGTGTTGCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGt < 1:240839/90‑1 (MQ=255)
ggCAATCCTGCTGGCTGTGTTGCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGt < 2:275032/90‑1 (MQ=255)
ctggctgTGTTGCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAAcc > 2:70417/1‑90 (MQ=255)
gCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACtt < 1:344459/90‑1 (MQ=255)
cACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTa < 2:9541/90‑1 (MQ=255)
cACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTa < 1:363176/90‑1 (MQ=255)
gTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCcggc < 2:468857/53‑1 (MQ=255)
gTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCcggc > 1:468857/1‑53 (MQ=255)
tGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGa < 1:99111/90‑1 (MQ=255)
cAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATg < 2:237221/90‑1 (MQ=255)
tGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGttt > 1:200301/1‑90 (MQ=255)
tGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGttt > 1:424410/1‑90 (MQ=255)
ggCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTc < 2:424410/90‑1 (MQ=255)
ggCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTc > 1:114290/1‑90 (MQ=255)
ccGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTCCa > 2:453723/1‑90 (MQ=255)
gATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTCCAGc > 1:52573/1‑90 (MQ=255)
gATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGtt > 1:369949/1‑62 (MQ=255)
gATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGtt < 2:369949/62‑1 (MQ=255)
gATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTCCAGCCTgcgc < 2:200301/90‑1 (MQ=255)
tgtgTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTCCAGCCTGCGCGa > 2:433204/1‑90 (MQ=255)
tgtTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTCCAGCCTGCGCGACa > 1:318062/1‑90 (MQ=255)
gtTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCg < 2:274172/35‑1 (MQ=38)
gtTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCg > 1:274172/1‑35 (MQ=38)
gtTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAAcc < 2:319431/40‑1 (MQ=39)
gtTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAAcc > 1:319431/1‑40 (MQ=39)
aCGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTCCAGCCTGCGCGACAGACCGCTGc > 2:183917/1‑90 (MQ=255)
tGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTCCAGCCTGCGCGACAGACCGCTGCCGc < 2:446521/90‑1 (MQ=255)
|
AAACCGTCTGGCAATCCTGCTGGCTGTGTTGCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGTCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTCCAGCCTGCGCGACAGACCGCTGCCGC > NZ_CP009273/4616733‑4616902
|
| 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
GGCTGGAACAAAACCGTCTGGCAATCCTGCTGGCTGTGTTGCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGTCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTCCAGCCTGCGCGACAG > NZ_CP009273/4616723‑4616891
|
GGCTGGAACAAAACCGTCTGGCAATCCTGCTGGCTGTGTTGCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGG < SRR3722048.119571/100‑1 (MQ=60)
GGCTGGAACAAAACCGTCTGGCAATCCTGCTGGCTGTGTTGCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGG > SRR3722048.470130/1‑100 (MQ=60)
GGCAATCCTGCTGGCTGTGTTGCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACC < SRR3722048.244246/100‑1 (MQ=60)
GTGTTGCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGctgtctcttatacacatctccgagccc > SRR3722048.476618/1‑73 (MQ=60)
GCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTG < SRR3722048.349844/100‑1 (MQ=60)
CACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGC < SRR3722048.368987/100‑1 (MQ=60)
GGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTT > SRR3722048.203105/1‑100 (MQ=60)
GGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTT > SRR3722048.431333/1‑100 (MQ=60)
GTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTC > SRR3722048.115958/1‑100 (MQ=60)
TGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTCCAG < SRR3722048.100555/100‑1 (MQ=60)
GCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTCCAGC > SRR3722048.53322/1‑100 (MQ=60)
GGCCGATCAGGATGTGTTTGTGAACGTGGCCGGCGCCGTGAAGGTAACCGAAACCAGTGCCGACTTAGGGTTACTGCTGGCGctgtctcttatacaaatc > SRR3722048.375907/1‑82 (MQ=60)
GATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTCCAGCCTGCGCGACA > SRR3722048.322897/1‑100 (MQ=60)
ATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCtgtctcttatacacatctccgagcccacgagacctctctacatc > SRR3722048.278218/1‑56 (MQ=60)
ATCAGGATGTGTTTGTGAACGTGGCCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTctgtctcttatacacatctccgagcccacgagacctctct > SRR3722048.324295/1‑60 (MQ=60)
|
GGCTGGAACAAAACCGTCTGGCAATCCTGCTGGCTGTGTTGCACCGTCACGGTGGTCTGCAAATGGCCGATCAGGATGTGTTTGTGAACGTGGTCGGCGGCGTGAAGGTAACCGAAACCAGTGCCGACTTAGCGTTACTGCTGGCGATGGTTTCCAGCCTGCGCGACAG > NZ_CP009273/4616723‑4616891
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
