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 I194 R1
|
197 |
32.2 |
1845014 |
95.2% |
1756453 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,273,721 |
A→G |
E49G (GAA→GGA) |
agaV → |
PTS N‑acetylgalactosamine transporter subunit IIB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,273,721 | 0 | A | G | 100.0%
| 98.0
/ NA
| 28 | E49G (GAA→GGA) | agaV | PTS N‑acetylgalactosamine transporter subunit IIB |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (12/16); total (12/16) |
TTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGAAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGAC > NZ_CP009273/3273634‑3273804
|
ttCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGgaa < 2:258268/90‑1 (MQ=255)
ggTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACt < 2:606652/90‑1 (MQ=255)
ggTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACt > 2:581124/1‑90 (MQ=255)
ggTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACt > 1:499683/1‑90 (MQ=255)
ggTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACt < 1:723944/90‑1 (MQ=255)
cGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGc < 1:455557/90‑1 (MQ=255)
gCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAggg > 2:42778/1‑90 (MQ=255)
aTCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc < 2:499683/90‑1 (MQ=255)
aTCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc < 1:415405/90‑1 (MQ=255)
aTCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc < 1:776392/90‑1 (MQ=255)
aTCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc < 1:805087/90‑1 (MQ=255)
aTCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc < 2:837229/90‑1 (MQ=255)
gTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc < 2:452281/85‑1 (MQ=255)
gTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc > 1:452281/1‑85 (MQ=255)
ggTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGAc > 1:843493/1‑90 (MQ=255)
tAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGc < 1:184982/90‑1 (MQ=255)
tAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGc < 2:200664/90‑1 (MQ=255)
tGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGa > 1:137065/1‑90 (MQ=255)
tGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGa > 2:830134/1‑90 (MQ=255)
ccGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGaca < 2:843493/90‑1 (MQ=255)
ccGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCAt < 1:206248/90‑1 (MQ=255)
cGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATc > 2:305505/1‑44 (MQ=255)
cGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATc < 1:305505/44‑1 (MQ=255)
aaacaaAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGcgcc < 1:411328/89‑1 (MQ=255)
aaCCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGc > 2:908838/1‑52 (MQ=255)
aaCCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGc < 1:908838/52‑1 (MQ=255)
aCCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATc > 2:896941/1‑90 (MQ=255)
tGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGAc > 2:131638/1‑90 (MQ=255)
tGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGAc > 1:382445/1‑90 (MQ=255)
|
TTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGAAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGAC > NZ_CP009273/3273634‑3273804
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ 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
AGGTCGGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGAAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGACAGAAAATCCTGCTGGT > NZ_CP009273/3273625‑3273820
|
AGGTCGGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAAT < SRR3722072.77712/100‑1 (MQ=60)
TCGGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGT < SRR3722072.840587/100‑1 (MQ=60)
GGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTAC < SRR3722072.198093/100‑1 (MQ=60)
GGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTAC < SRR3722072.801041/100‑1 (MQ=60)
GGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTAC < SRR3722072.596932/100‑1 (MQ=60)
GGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTAC < SRR3722072.46586/100‑1 (MQ=60)
GCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACT > SRR3722072.508711/1‑100 (MQ=60)
GGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGG < SRR3722072.736807/100‑1 (MQ=60)
CGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATC < SRR3722072.463902/100‑1 (MQ=60)
acgtctcgtgggctcggagatgtgtataagagacagGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTT < SRR3722072.310798/64‑1 (MQ=60)
GGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTC > SRR3722072.460560/1‑100 (MQ=60)
cggcatacgagataatcggacgtctcgtgggctcggagatgtgtataagagacagGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGAC < SRR3722072.595172/45‑1 (MQ=60)
ATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGAC < SRR3722072.422923/100‑1 (MQ=60)
ATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGAC < SRR3722072.790030/100‑1 (MQ=60)
ATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGAC < SRR3722072.819131/100‑1 (MQ=60)
ATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGAC > SRR3722072.858095/1‑100 (MQ=60)
tgggctcggagatgtgtataagagacagGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGT < SRR3722072.924477/72‑1 (MQ=60)
TAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGT < SRR3722072.188196/100‑1 (MQ=60)
ACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGA > SRR3722072.139511/1‑100 (MQ=60)
CCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCG < SRR3722072.209780/100‑1 (MQ=60)
CAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGAC > SRR3722072.389285/1‑100 (MQ=60)
AAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGAC < SRR3722072.418775/100‑1 (MQ=60)
GAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGACAGAAAATCCTGCTGGT > SRR3722072.675263/1‑100 (MQ=60)
|
AGGTCGGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGAAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGACAGAAAATCCTGCTGGT > NZ_CP009273/3273625‑3273820
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
