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 I206 R1
|
206 |
23.7 |
1314362 |
96.8% |
1272302 |
86.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,153,703 |
A→T |
I127F (ATC→TTC) |
ptsG → |
PTS glucose transporter subunit IIBC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,153,703 | 0 | A | T | 100.0%
| 69.8
/ NA
| 19 | I127F (ATC→TTC) | ptsG | PTS glucose transporter subunit IIBC |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (11/8); total (11/8) |
TGGTACTGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGATCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCTTTGTGCCG > NZ_CP009273/1153620‑1153786
|
tGGTACTGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAg < 2:265808/90‑1 (MQ=255)
ggTACTGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGc > 2:617458/1‑90 (MQ=255)
tGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACa < 2:584152/90‑1 (MQ=255)
tGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACa < 2:2483/90‑1 (MQ=255)
aTTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGt > 1:236413/1‑90 (MQ=255)
gctgAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGt > 1:26710/1‑90 (MQ=255)
gaaATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTAc < 1:255489/90‑1 (MQ=255)
gaaATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTAc < 2:447829/90‑1 (MQ=255)
ccTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTa > 1:186842/1‑90 (MQ=255)
ctAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGc < 1:104519/90‑1 (MQ=255)
acacCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGcc < 2:341618/90‑1 (MQ=255)
ccTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGa > 2:240338/1‑90 (MQ=255)
ggCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTa > 2:159527/1‑90 (MQ=255)
aCTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGc > 1:597427/1‑90 (MQ=255)
gAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTa > 1:463510/1‑90 (MQ=255)
gggATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTaaa < 1:93065/90‑1 (MQ=255)
ttATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCt > 2:208636/1‑90 (MQ=255)
ttATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCt > 2:346015/1‑90 (MQ=255)
ggTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGCATTAAGCTGCCTGAGTATCTTGGCTTCTTTCCCGGTAAACGCTTTGTGCCg > 2:413529/1‑90 (MQ=255)
|
TGGTACTGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGATCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCTTTGTGCCG > NZ_CP009273/1153620‑1153786
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ 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
CCGTGGTTGCGCCACTGGTACTGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGATCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCTTTGTGC > NZ_CP009273/1153605‑1153784
|
CCGTGGTTGCGCCACTGGTACTGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTT > SRR3722088.265535/1‑100 (MQ=60)
GTTGCGCCACTGGTACTGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAG < SRR3722088.371619/100‑1 (MQ=60)
CTGGTACTGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGT > SRR3722088.238751/1‑100 (MQ=60)
GCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGT > SRR3722088.26990/1‑100 (MQ=60)
GAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTA > SRR3722088.188715/1‑100 (MQ=60)
GAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGC < SRR3722088.257977/100‑1 (MQ=60)
CTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTA < SRR3722088.105589/100‑1 (MQ=60)
ATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGC > SRR3722088.604783/1‑100 (MQ=60)
GGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTA > SRR3722088.468932/1‑100 (MQ=60)
GGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCTTTGTGC < SRR3722088.94006/100‑1 (MQ=60)
|
CCGTGGTTGCGCCACTGGTACTGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGATCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCTTTGTGC > NZ_CP009273/1153605‑1153784
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
