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 I228 R1
|
214 |
26.5 |
1448192 |
97.1% |
1406194 |
86.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,801,112 |
A→C |
T208P (ACC→CCC) |
proX → |
glycine betaine/L‑proline ABC transporter substrate‑binding protein ProX |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,801,112 | 0 | A | C | 100.0%
| 67.3
/ NA
| 21 | T208P (ACC→CCC) | proX | glycine betaine/L‑proline ABC transporter substrate‑binding protein ProX |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (11/10); total (11/10) |
CGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACACCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTGCA > NZ_CP009273/2801027‑2801173
|
cGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTg < 2:171749/90‑1 (MQ=255)
cGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTg < 1:49133/90‑1 (MQ=255)
gTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTgg < 1:187538/90‑1 (MQ=255)
gTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTgg > 2:431180/1‑90 (MQ=255)
gTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTgg > 2:187538/1‑90 (MQ=255)
gTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTgg > 1:514077/1‑90 (MQ=255)
gTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTgg > 1:55217/1‑90 (MQ=255)
gCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGcc > 2:575886/1‑90 (MQ=255)
tAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTa > 2:668880/1‑90 (MQ=255)
gggAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTGGGTg < 1:174190/90‑1 (MQ=255)
gCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGc < 2:367561/70‑1 (MQ=255)
gCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGc > 1:367561/1‑70 (MQ=255)
tgatgGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGc < 2:612714/90‑1 (MQ=255)
tgatgGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTCTTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGc < 1:448482/90‑1 (MQ=255)
cATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTg > 1:472110/1‑57 (MQ=255)
cATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTg < 2:472110/57‑1 (MQ=255)
tCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATgtcg > 1:475830/1‑90 (MQ=255)
cGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTAc > 1:640719/1‑48 (MQ=255)
cGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTAc < 2:640719/48‑1 (MQ=255)
tACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTg > 2:154405/1‑90 (MQ=255)
cAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTGCa < 1:668880/90‑1 (MQ=255)
|
CGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACACCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTGCA > NZ_CP009273/2801027‑2801173
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 32 ≤ 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
AACTGACCAACACCGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACACCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTGCAGGTGCCGTTCTCCGCACTGCCGGGCGATAAAAACGCC > NZ_CP009273/2801014‑2801210
|
agatgtgtataagagacagGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCC < SRR3722112.1085/81‑1 (MQ=60)
AACTGACCAACACCGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCC < SRR3722112.304163/100‑1 (MQ=60)
GACCAACACCGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGG > SRR3722112.55898/1‑100 (MQ=60)
GACCAACACCGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGG > SRR3722112.521605/1‑100 (MQ=60)
CCAACACCGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGAC < SRR3722112.662229/100‑1 (MQ=60)
AACACCGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACACCTGGACGC < SRR3722112.502684/100‑1 (MQ=60)
CGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTAC < SRR3722112.49735/100‑1 (MQ=60)
GTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACT < SRR3722112.189842/100‑1 (MQ=60)
GGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTGGGTctgtctctta > SRR3722112.372287/1‑90 (MQ=60)
GGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAAC < SRR3722112.176319/100‑1 (MQ=60)
TGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTCTTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGA < SRR3722112.454729/100‑1 (MQ=60)
TGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTGGGTGAGgaacctgtctcttatacacatctgacg > SRR3722112.478841/1‑73 (MQ=60)
GCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCG > SRR3722112.482633/1‑100 (MQ=60)
CACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTGGGTGAGTActgtctcttatacacatctgacgctgccgacg > SRR3722112.650677/1‑68 (MQ=60)
CAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTGCAGGTGCCGTTC < SRR3722112.679320/100‑1 (MQ=60)
TTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTGCAGGTGCCGTTCTCCGCACTGCCGGGCGATAAA > SRR3722112.513086/1‑100 (MQ=60)
CCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTGCtgtctcttatacacatctgacgctgccgacgaatgtca > SRR3722112.81661/1‑62 (MQ=60)
CCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTGCAGGTGCCGTTCTCCGCACTGCCGGGCGATAAAAACGCC > SRR3722112.547053/1‑100 (MQ=60)
|
AACTGACCAACACCGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACACCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTGCAGGTGCCGTTCTCCGCACTGCCGGGCGATAAAAACGCC > NZ_CP009273/2801014‑2801210
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
