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 F3 I122 R1
|
193 |
20.9 |
1228102 |
94.7% |
1163012 |
84.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,495,584 |
A→G |
K161E (AAA→GAA) |
nanY → |
2,7‑anhydro‑N‑acetylneuraminate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,495,584 | 0 | A | G | 100.0%
| 78.9
/ NA
| 22 | K161E (AAA→GAA) | nanY | 2,7‑anhydro‑N‑acetylneuraminate hydratase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (7/15); total (7/15) |
ATCGGCGAAATATTATCATGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGAAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATCATATACATGAGTTAGATTGTGTTCAGCATTTACTTGGA > NZ_CP009273/4495515‑4495661
|
aTCGGCGAAATATTATCATGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCt < 1:121220/90‑1 (MQ=255)
cGAAATATTATCATGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCtggtgg < 1:352349/90‑1 (MQ=255)
aaaTATTATCATGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGAc < 2:590301/90‑1 (MQ=255)
aaTATTATCATGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACa < 2:234258/90‑1 (MQ=255)
cATGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATatc < 2:189698/90‑1 (MQ=255)
tGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATatcat < 1:153260/90‑1 (MQ=255)
gTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATatcatc > 2:34024/1‑90 (MQ=255)
gTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATatc > 1:303715/1‑87 (MQ=255)
gTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATatc < 2:303715/87‑1 (MQ=255)
cATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACaa < 1:145493/66‑1 (MQ=255)
cATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACaa > 2:145493/1‑66 (MQ=255)
aTACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATCata < 1:113413/90‑1 (MQ=255)
aTACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATCata > 2:101122/1‑90 (MQ=255)
aaGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATCATATACAt > 2:297468/1‑90 (MQ=255)
agagAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATCATATACATg < 2:83169/90‑1 (MQ=255)
aTGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATatcat > 1:396647/1‑74 (MQ=255)
aTGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATatcat < 2:396647/74‑1 (MQ=255)
ggCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATCATATACATGAGTTAGAt < 1:34024/90‑1 (MQ=255)
acaaGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGAc > 2:155352/1‑47 (MQ=255)
acaaGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGAc < 1:155352/47‑1 (MQ=255)
acaaGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATCATATACATGAGTTAGATTGTGTTCAGCAttt < 2:431834/90‑1 (MQ=255)
agaCTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATCATATACATGAGTTAGATTGTGTTCAGCATTTACTTGga < 2:194153/90‑1 (MQ=255)
|
ATCGGCGAAATATTATCATGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGAAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATCATATACATGAGTTAGATTGTGTTCAGCATTTACTTGGA > NZ_CP009273/4495515‑4495661
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
ATGCACGGAAGTTAATTAAAGAAGGTGTTATCGGCGAAATATTATCATGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGAAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATCATATACATGAGTTAGATTGTGTTCAGC > NZ_CP009273/4495486‑4495650
|
ATGCACGGAAGTTAATTAAAGAAGGTGTTATCGGCGAAATATTATCATGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGA < SRR3721989.384210/100‑1 (MQ=60)
GCACGGAAGTTAATTAAAGAAGGTGTTATCGGCGAAATATTATCATGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAA < SRR3721989.146661/100‑1 (MQ=60)
tgtataagagacagATTATCATGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGAC < SRR3721989.148133/86‑1 (MQ=60)
ATCGGCGAAATATTATCATGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATC < SRR3721989.123434/100‑1 (MQ=60)
CGAAATATTATCATGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATAT < SRR3721989.359112/100‑1 (MQ=60)
tcgtcggcagcgtcagatgtgtataagagacagGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATATCA < SRR3721989.158171/67‑1 (MQ=60)
ATATTATCATGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATC > SRR3721989.309437/1‑100 (MQ=60)
TGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATCATATACATG < SRR3721989.156037/100‑1 (MQ=60)
ATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATCATATACATGAGTT < SRR3721989.115482/100‑1 (MQ=60)
ACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATCATATACATGctgtct > SRR3721989.404701/1‑94 (MQ=60)
GGCTGGGAAAACAAACAAGAGAGACTTTCCTGGGAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATCATATACATGAGTTAGATTGTGTTCAGC < SRR3721989.34613/100‑1 (MQ=60)
|
ATGCACGGAAGTTAATTAAAGAAGGTGTTATCGGCGAAATATTATCATGTCATACTAAGAGAAATGGCTGGGAAAACAAACAAGAGAGACTTTCCTGGAAAAAGATGAAAGAACAATCTGGTGGACATCTATATCATCATATACATGAGTTAGATTGTGTTCAGC > NZ_CP009273/4495486‑4495650
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
