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 I206 R1
|
206 |
23.7 |
1314362 |
96.8% |
1272302 |
86.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,726,562 |
(T)5→4 |
coding (971/2574 nt) |
clpB ← |
ATP‑dependent chaperone ClpB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,726,558 | 0 | T | . | 100.0%
| 50.5
/ NA
| 13 | coding (975/2574 nt) | clpB | ATP‑dependent chaperone ClpB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (6/7); total (6/7) |
ACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAG > NZ_CP009273/2726480‑2726606
|
aCGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTAc > 2:148644/1‑90 (MQ=255)
aCGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTAc > 2:164291/1‑90 (MQ=255)
aGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGc < 1:148644/90‑1 (MQ=255)
gAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCg > 1:224644/1‑90 (MQ=255)
aTCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGat < 2:11376/90‑1 (MQ=255)
ggTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCa > 2:442250/1‑90 (MQ=255)
aaCAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTg < 1:490577/90‑1 (MQ=255)
aCAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTgg > 1:449347/1‑90 (MQ=255)
gAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCAc > 1:177829/1‑90 (MQ=255)
aaGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCAcc < 2:166431/90‑1 (MQ=255)
tCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGc < 1:442250/90‑1 (MQ=255)
ggCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAg < 1:221126/90‑1 (MQ=255)
ggCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAg < 2:576320/90‑1 (MQ=255)
|
ACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAG > NZ_CP009273/2726480‑2726606
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ 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
TAACGTTCTTTCAGGCCACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAGCGCCGGTTTCAGCATGTTTCCGGCGTCCATTGCGC > NZ_CP009273/2726463‑2726661
|
TAACGTTCTTTCAGGCCACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTC < SRR3722088.460055/100‑1 (MQ=60)
AGGCCACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCG > SRR3722088.226889/1‑100 (MQ=60)
AGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTC < SRR3722088.150162/100‑1 (MQ=60)
GGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGG > SRR3722088.454576/1‑100 (MQ=60)
ATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCAC > SRR3722088.179608/1‑100 (MQ=60)
AACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGC < SRR3722088.496430/100‑1 (MQ=60)
TCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTC < SRR3722088.447351/100‑1 (MQ=60)
GGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATC‑TTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCAC < SRR3722088.223341/100‑1 (MQ=60)
TCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAGCGCCGGTTTCAGCATGTTTCCGGCGTCCATTGCGC < SRR3722088.562992/100‑1 (MQ=60)
|
TAACGTTCTTTCAGGCCACGCAGAATCGCAATGGTATCTTCAACAGAAGGCTCGGCAACAAACACTTTCTGGAAACGACGTTCCAGCGCAGCATCTTTTTCAATGTACTGGCGATATTCGTCAAGCGTCGTGGCACCTACGCAGTGCAATTCACCACGCGCCAGCGCCGGTTTCAGCATGTTTCCGGCGTCCATTGCGC > NZ_CP009273/2726463‑2726661
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
