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 I195 R1
|
222 |
27.1 |
1551108 |
96.0% |
1489063 |
86.0 |
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%
| 58.5
/ NA
| 18 | I127F (ATC→TTC) | ptsG | PTS glucose transporter subunit IIBC |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (10/8); total (10/8) |
ACTGGTACTGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGATCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCTTTGTGCCGATC > NZ_CP009273/1153618‑1153789
|
aCTGGTACTGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGc > 2:98479/1‑90 (MQ=255)
tGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACa < 2:535881/90‑1 (MQ=255)
ttACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGttt < 2:510015/90‑1 (MQ=255)
tACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTa < 1:358314/82‑1 (MQ=255)
tACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTa > 2:358314/1‑82 (MQ=255)
gaaATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTAc < 1:761406/90‑1 (MQ=255)
tCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTa > 2:185051/1‑90 (MQ=255)
aaaCACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTg < 2:289504/90‑1 (MQ=255)
ccTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGc < 1:533358/48‑1 (MQ=255)
ccTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGc > 2:533358/1‑48 (MQ=255)
ggCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGcttc > 1:729889/1‑90 (MQ=255)
tACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTg > 1:91770/1‑90 (MQ=255)
aCTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGc < 2:400982/90‑1 (MQ=255)
aCTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGc > 2:641735/1‑90 (MQ=255)
aTTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGc > 1:366854/1‑90 (MQ=255)
ggTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCTTTGTGCCg > 1:516730/1‑90 (MQ=255)
ggTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCTTTGTGCCg > 1:224743/1‑90 (MQ=255)
gCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCTTTGTGCCGATc < 2:138075/90‑1 (MQ=255)
|
ACTGGTACTGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGATCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCTTTGTGCCGATC > NZ_CP009273/1153618‑1153789
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ 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
ACTGGTACTGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGATCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCTTTGTGCCGATCATTTCTGGCC > NZ_CP009273/1153618‑1153799
|
cgtcggcagcgtcagatgtctaaaagagacCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCCTACATG < SRR3722073.544494/70‑1 (MQ=60)
ACTGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAAC < SRR3722073.365898/100‑1 (MQ=60)
GAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGC < SRR3722073.776782/100‑1 (MQ=60)
GGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTC > SRR3722073.744621/1‑100 (MQ=60)
GATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTG > SRR3722073.93826/1‑100 (MQ=60)
ACTCGGAGGGATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGC > SRR3722073.374642/1‑100 (MQ=60)
GATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCTTTGTGCCG > SRR3722073.229421/1‑100 (MQ=60)
GATTATCTCCGGTGCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCTTTGTGCCG > SRR3722073.527614/1‑100 (MQ=60)
GCGTTCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCTTTGTGCCGATCATTTCTGGCC > SRR3722073.423307/1‑100 (MQ=60)
|
ACTGGTACTGCATTTACCTGCTGAAGAAATCGCCTCTAAACACCTGGCGGATACTGGCGTACTCGGAGGGATTATCTCCGGTGCGATCGCAGCGTACATGTTTAACCGTTTCTACCGTATTAAGCTGCCTGAGTATCTTGGCTTCTTTGCCGGTAAACGCTTTGTGCCGATCATTTCTGGCC > NZ_CP009273/1153618‑1153799
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
