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 I207 R1
|
218 |
45.0 |
2482936 |
97.1% |
2410930 |
86.1 |
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%
| 92.0
/ NA
| 27 | E49G (GAA→GGA) | agaV | PTS N‑acetylgalactosamine transporter subunit IIB |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (13/14); total (13/14) |
TCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGAAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATC > NZ_CP009273/3273635‑3273801
|
tCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAAt < 1:488112/90‑1 (MQ=255)
tCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAAt < 2:1216529/90‑1 (MQ=255)
cAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATg > 2:1012499/1‑90 (MQ=255)
cAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATg > 1:925954/1‑90 (MQ=255)
ggTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACt < 2:872101/90‑1 (MQ=255)
gCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAggg > 1:311381/1‑90 (MQ=255)
cGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGa < 2:204407/90‑1 (MQ=255)
aTCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc < 1:803426/90‑1 (MQ=255)
aTCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc < 2:1214698/90‑1 (MQ=255)
aTCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc < 2:445739/90‑1 (MQ=255)
aTCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc < 2:343170/90‑1 (MQ=255)
ggTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc < 1:643756/80‑1 (MQ=255)
ggTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTAc > 2:643756/1‑80 (MQ=255)
ggTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGAc > 2:1116264/1‑90 (MQ=255)
gTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACg < 2:925954/90‑1 (MQ=255)
gTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACg < 2:876088/90‑1 (MQ=255)
gTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACg < 1:150617/90‑1 (MQ=255)
ccAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCGGc > 1:532925/1‑90 (MQ=255)
aGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTa < 2:40180/90‑1 (MQ=255)
gTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATc < 2:1111094/90‑1 (MQ=255)
aacaaAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGcgccg > 2:290680/1‑90 (MQ=255)
aacaaAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGcgccg > 2:180949/1‑90 (MQ=255)
aacaaAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGcgccg > 2:1105155/1‑90 (MQ=255)
aaaCCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGa > 2:263527/1‑90 (MQ=255)
aCCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATc > 2:36503/1‑90 (MQ=255)
aCCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATc > 2:502010/1‑90 (MQ=255)
aCCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATc > 2:1167426/1‑90 (MQ=255)
|
TCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGAAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATC > NZ_CP009273/3273635‑3273801
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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
AGGTCGGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGAAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGACAGAAAATCCTG > NZ_CP009273/3273625‑3273815
|
AGGTCGGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAAT < SRR3722089.189763/100‑1 (MQ=60)
GGTCGGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATG > SRR3722089.939462/1‑100 (MQ=60)
GGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGTTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTAC < SRR3722089.844478/100‑1 (MQ=60)
GGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTAC < SRR3722089.668439/100‑1 (MQ=60)
TCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCA < SRR3722089.493906/100‑1 (MQ=60)
GGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGG > SRR3722089.315326/1‑100 (MQ=60)
ATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGAC < SRR3722089.651979/100‑1 (MQ=60)
ATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGAC < SRR3722089.814581/100‑1 (MQ=60)
GTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCGGC > SRR3722089.539136/1‑100 (MQ=60)
GTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAG < SRR3722089.152487/100‑1 (MQ=60)
CCTGATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGACAGAAAATC > SRR3722089.957391/1‑100 (MQ=60)
GATGGGAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGACAGAAAATCCTG > SRR3722089.1192676/1‑100 (MQ=60)
|
AGGTCGGCGTTCAATGGGTCGGATTTGCGGGGGCAAATCTGGTGCTGGTAGCCAACGATGAGGTTGCCGAAGATCCGGTACAACAAAACCTGATGGAAATGGTACTGGCAGAAGGGATCGCCGTACGTTTCTGGACGCTGCAAAAAGTTATCGACAACATTCATCGCGCCGCCGATCGACAGAAAATCCTG > NZ_CP009273/3273625‑3273815
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
