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 I199 R1
|
220 |
57.5 |
3163680 |
97.0% |
3068769 |
86.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,818,956 |
T→G |
K80T (AAA→ACA) |
ves ← |
environmental stress‑induced protein Ves |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,818,956 | 0 | T | G | 100.0%
| 74.0
/ NA
| 24 | K80T (AAA→ACA) | ves | environmental stress‑induced protein Ves |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (12/12); total (12/12) |
TGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTTTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGG > NZ_CP009273/1818870‑1819037
|
tgatgTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTa < 2:1252441/90‑1 (MQ=255)
tgatgTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTa < 1:583431/90‑1 (MQ=255)
tGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTAt > 1:176516/1‑90 (MQ=255)
aTCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAg > 1:1505169/1‑90 (MQ=255)
gccctgccGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTgcgc < 2:543320/90‑1 (MQ=255)
gccctgccGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTgcgc < 1:398773/90‑1 (MQ=255)
cAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTa < 2:370311/56‑1 (MQ=255)
cAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTa > 1:370311/1‑56 (MQ=255)
cAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAg > 2:327935/1‑90 (MQ=255)
gCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTgc > 1:837620/1‑71 (MQ=255)
gCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTgc < 2:837620/71‑1 (MQ=255)
ttttACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTcgcc < 2:1020721/90‑1 (MQ=255)
ttACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTcgccgc < 1:1252698/90‑1 (MQ=255)
tCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAAc < 1:1421917/90‑1 (MQ=255)
ccGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACg > 1:154582/1‑90 (MQ=255)
cTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCa > 1:1072520/1‑90 (MQ=255)
cTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCa > 2:1391134/1‑90 (MQ=255)
cAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTTCGTTTTCAAGGAGCAGCTCGCCCCCTTCCAACAACGTCACTa < 1:72756/90‑1 (MQ=255)
aaaGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTa > 2:776953/1‑89 (MQ=255)
aaaGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTa < 1:776953/89‑1 (MQ=255)
aaGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATc > 1:1203035/1‑90 (MQ=255)
ggCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCt > 1:842730/1‑90 (MQ=255)
aaaaGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTc > 1:351441/1‑90 (MQ=255)
ggAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCgg < 1:987281/90‑1 (MQ=255)
|
TGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTTTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGG > NZ_CP009273/1818870‑1819037
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 32 ≤ 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
CGTGTCATGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTTTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGGGAAACAAAGAAAACTCCC > NZ_CP009273/1818863‑1819055
|
CGTGTCATGATGTTGAAATCCATCGCCATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGG < SRR3722078.1015784/100‑1 (MQ=60)
CGTGTCATGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGG < SRR3722078.1136385/100‑1 (MQ=60)
CGTGTCATGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGG < SRR3722078.326010/100‑1 (MQ=60)
CGTGTCATGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGG < SRR3722078.1279593/100‑1 (MQ=60)
GTCATGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTAT > SRR3722078.178585/1‑100 (MQ=60)
TGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTT < SRR3722078.590230/100‑1 (MQ=60)
GTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAG > SRR3722078.1529723/1‑100 (MQ=60)
GCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTctgtctcttatacacatctgacgc > SRR3722078.374837/1‑76 (MQ=60)
GCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAG < SRR3722078.403608/100‑1 (MQ=60)
CGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGctgtctctt > SRR3722078.848765/1‑91 (MQ=60)
TTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAA < SRR3722078.1272524/100‑1 (MQ=60)
ACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACG > SRR3722078.156383/1‑100 (MQ=60)
ACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCA > SRR3722078.1088711/1‑100 (MQ=60)
GTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATC > SRR3722078.1221902/1‑100 (MQ=60)
TCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCC < SRR3722078.1445017/100‑1 (MQ=60)
CCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCT > SRR3722078.853972/1‑100 (MQ=60)
CTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTC > SRR3722078.355740/1‑100 (MQ=60)
CAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTTCGTTTTCAAGGAGCAGCTCGCCCCCTTCCAACAACGTCACTATCCTTTCCAT < SRR3722078.73619/100‑1 (MQ=60)
CAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCAT < SRR3722078.787022/100‑1 (MQ=60)
GGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCctgtctcttatac > SRR3722078.1027841/1‑87 (MQ=60)
GGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGGGAAACAAAGA < SRR3722078.1001586/100‑1 (MQ=60)
GTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTTTCCTTTCCATGCCGGGAAACAAAGAAAACTC > SRR3722078.1029041/1‑100 (MQ=60)
GTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGGGAAACAAAGAAAACTC > SRR3722078.1232928/1‑100 (MQ=60)
GTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGGGAAACAAAGAAAACTC > SRR3722078.1222810/1‑100 (MQ=60)
GTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGGGAAACAAAGAAAACTC > SRR3722078.352327/1‑100 (MQ=60)
GTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGGGAAACAAAGAAAACTC > SRR3722078.1115852/1‑100 (MQ=60)
GTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGGGAAACAAAGAAAACTC > SRR3722078.558904/1‑100 (MQ=60)
GTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGGGAAACAAAGAAAACTCCC > SRR3722078.192923/1‑100 (MQ=60)
|
CGTGTCATGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTTTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGGGAAACAAAGAAAACTCCC > NZ_CP009273/1818863‑1819055
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
