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 I205 R1
|
220 |
17.5 |
961422 |
97.1% |
933540 |
86.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
385,080 |
A→C |
I35S (ATC→AGC) |
hemB ← |
porphobilinogen synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 385,080 | 0 | A | C | 100.0%
| 44.5
/ NA
| 15 | I35S (ATC→AGC) | hemB | porphobilinogen synthase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (6/9); total (6/9) |
TCGCGTGCCAGATGTTTCTCTGGAATGCGCATCACGCCTGGCATGGCTTCAACGGCTTTGTAGTCGTCAATTTCTTCTTCAACAAAGATCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATTTGCGCAGGCGACGAGG > NZ_CP009273/384993‑385162
|
tCGCGTGCCAGATGTTTCTCTGGAATGCGCATCACGCCTGGCATGGCTTCAACGGCTTTGTAGTCGTCAATTTCTTCTTCAACAAAGCTc > 1:79723/1‑90 (MQ=255)
gcgTGCCAGATGTTTCTCTGGAATGCGCATCACGCCTGGCATGGCTTCAACGGCTTTGTAGTCGTCAATTTCTTCTTCAACAAAGCTCgg > 2:191970/1‑90 (MQ=255)
ctGGAATGCGCATCACGCCTGGCATGGCTTCAACGGCTTTGTAGGCGTCAATTTCTCCTCCAACAAAGCTCGGCAACACCAGGTCGTTaa < 2:263993/90‑1 (MQ=255)
ccTGGCATGGCTTCAACGGCTTTGTAGTCGTCAATTTCTTCTTCAACAAAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTctct < 2:79723/90‑1 (MQ=255)
gCTTTGTAGTCGTCAATTTCTTCTTCAACAAAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCgcgcagc < 2:154473/90‑1 (MQ=255)
gTAGTCGTCAATTTCTTCTTCAACAAAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAgg < 1:163293/90‑1 (MQ=255)
gTAGTCGTCAATTTCTTCTTCAACAAAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAgg < 2:163705/90‑1 (MQ=255)
gTAGTCGTCAATTTCTTCTTCAACAAAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAgg < 2:38319/90‑1 (MQ=255)
gTAGTCGTCAATTTCTTCTTCAACAAAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAgg < 2:428292/90‑1 (MQ=255)
cgtcAATTTCTTCTTCAACAAAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGAtt > 1:361501/1‑90 (MQ=255)
cgtcAATTTCTTCTTCAACAAAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGAtt > 2:210080/1‑90 (MQ=255)
ttcttcttcAACAAAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATTTGCGCAg < 2:379628/90‑1 (MQ=255)
caacaaAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATTTGCGCAGGCGACGAg > 1:38152/1‑90 (MQ=255)
caacaaAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATTTGCGCAGGCGACGAg < 2:374133/90‑1 (MQ=255)
aacaaAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATTTGCGCAGGCGACGAgg > 1:38153/1‑90 (MQ=255)
|
TCGCGTGCCAGATGTTTCTCTGGAATGCGCATCACGCCTGGCATGGCTTCAACGGCTTTGTAGTCGTCAATTTCTTCTTCAACAAAGATCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATTTGCGCAGGCGACGAGG > NZ_CP009273/384993‑385162
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 31 ≤ 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
ATGCGTTCAATTTCGCGTGCCAGATGTTTCTCTGGAATGCGCATCACGCCTGGCATGGCTTCAACGGCTTTGTAGTCGTCAATTTCTTCTTCAACAAAGATCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATTTGCGCAGGCGACGAGGGCGTTGGATTAAGTC > NZ_CP009273/384981‑385177
|
ATGCGTTCAATTTCGCGTGCCAGATGTTTCTCTGGAATGCGCATCACGCCTGGCATGGCTTCAACGGCTTTGTAGTCGTCAATTTCTTCTTCAACAAAGC < SRR3722087.282704/100‑1 (MQ=60)
GCGTTCAATTTCGCGTGCCAGATGTTTCTCTGGAATGCGCATCACGCCTGGCATGGCTTCAACGGCTTTGTAGTCGTCAATTTCTTCTTCAACAAAGCTC > SRR3722087.80465/1‑100 (MQ=60)
AATTTCGCGTGCCAGATGTTTCTCTGGAATGCGCATCACGCCTGGCATGGCTTCAACGGCTTTGTAGTCGTCAATTTCTTCTTCAACAAAGCTCGGCAAC < SRR3722087.9011/100‑1 (MQ=60)
GCTTTGTAGTCGTCAATTTCTTCTTCAACAAAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATT > SRR3722087.365595/1‑100 (MQ=60)
GTAGTCGTCAATTTCTTCTTCAACAAAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATTTGCGC < SRR3722087.164784/100‑1 (MQ=60)
ATTTCTTCTTCAACAAAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATTTGCGCAGGCGACGAG > SRR3722087.38461/1‑100 (MQ=60)
ATTCTTCTTCAACAAAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATTTGCGCAGGCGACGAGG > SRR3722087.38462/1‑100 (MQ=60)
TCTTCAACAAAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATTTGCGCAGGCGACGAGGGCGTT > SRR3722087.341238/1‑100 (MQ=60)
CTTCAACAAAGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATTTGCGCAGGCGACGAGGGCGTTG > SRR3722087.481090/1‑100 (MQ=60)
AGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATTTGCGCAGGCGACGAGGGCGTTGGATTAAGTC < SRR3722087.183078/100‑1 (MQ=60)
AGCTCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATTTGCGCAGGCGACGAGGGCGTTGGATTAAGTC < SRR3722087.211911/100‑1 (MQ=60)
|
ATGCGTTCAATTTCGCGTGCCAGATGTTTCTCTGGAATGCGCATCACGCCTGGCATGGCTTCAACGGCTTTGTAGTCGTCAATTTCTTCTTCAACAAAGATCGGCAACACCAGGTCGTTAAGGCTAAGTGTTGTCTCTTCAAACATAGCGCGCAGCGCAGGAGATTTGCGCAGGCGACGAGGGCGTTGGATTAAGTC > NZ_CP009273/384981‑385177
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
