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 I225 R1
|
227 |
21.4 |
1179702 |
97.1% |
1145490 |
86.5 |
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%
| 59.2
/ NA
| 19 | E49G (GAA→GGA) | agaV | PTS N‑acetylgalactosamine transporter subunit IIB |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (8/11); total (8/11) |
TGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGAAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGACAG > NZ_CP009273/3273639‑3273806
|
tGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTa < 2:99677/90‑1 (MQ=255)
gggTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTAc < 2:197511/90‑1 (MQ=255)
ggCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGGTGGGAATGGTACTGGCAGAAGGGATCGc > 1:348742/1‑90 (MQ=255)
ggCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGaa < 1:242044/82‑1 (MQ=255)
ggCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGaa > 2:242044/1‑82 (MQ=255)
aTCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc < 2:106116/90‑1 (MQ=255)
aTCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc < 2:306938/90‑1 (MQ=255)
aTCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc < 1:137940/90‑1 (MQ=255)
aTCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc < 1:254521/90‑1 (MQ=255)
tGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGa > 1:541683/1‑90 (MQ=255)
gTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACg < 1:440842/90‑1 (MQ=255)
gCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTg > 1:185871/1‑90 (MQ=255)
aCGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCaaa > 2:282230/1‑90 (MQ=255)
cGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCaaaa < 2:541683/90‑1 (MQ=255)
ccGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGaca < 2:277569/90‑1 (MQ=255)
tACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATcgcg > 1:410084/1‑90 (MQ=255)
caacaaAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGcgcc > 1:233900/1‑90 (MQ=255)
aCCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATc > 2:530065/1‑90 (MQ=255)
aTGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGACAg < 2:370604/90‑1 (MQ=255)
|
TGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGAAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGACAG > NZ_CP009273/3273639‑3273806
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ 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
AGGTCGGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGAAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGACAGAAAATCCTGCTGGT > NZ_CP009273/3273625‑3273820
|
AGGTCGGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAAT < SRR3722109.457053/100‑1 (MQ=60)
GATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGGTGGGAATGGTACTGGCAGAAGGGATCGC > SRR3722109.353446/1‑100 (MQ=60)
TTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCG < SRR3722109.244892/100‑1 (MQ=60)
AATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGA > SRR3722109.549901/1‑100 (MQ=60)
ATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGAC < SRR3722109.139644/100‑1 (MQ=60)
ATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGAC < SRR3722109.257556/100‑1 (MQ=60)
GGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTG > SRR3722109.188161/1‑100 (MQ=60)
GTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAG < SRR3722109.447375/100‑1 (MQ=60)
GCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGctgtctcttatacacatctgacgctgccgacgaatgtcaatgtgtaga > SRR3722109.71670/1‑52 (MQ=60)
GAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCG > SRR3722109.416057/1‑100 (MQ=60)
AGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCC > SRR3722109.236670/1‑100 (MQ=60)
GAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGACAGAAAATCCTGCTGGT > SRR3722109.205101/1‑100 (MQ=60)
|
AGGTCGGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGAAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGACAGAAAATCCTGCTGGT > NZ_CP009273/3273625‑3273820
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
