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 F4 I88 R1
|
217 |
30.5 |
1742422 |
95.9% |
1670982 |
87.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
524,350 |
T→C |
F85F (TTT→TTC) |
BW25113_RS24960 → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 524,350 | 0 | T | C | 100.0%
| 100.4
/ NA
| 27 | F85F (TTT→TTC) | BW25113_RS24960 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (19/8); total (19/8) |
CATGGCTCCCAGATTTTTTTCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTTCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAAT > NZ_CP009273/524265‑524436
|
cATGGCTCCCAGATTTTTTTCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTa < 2:68401/91‑1 (MQ=255)
ggCTCCCAGATTTTTTTCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACa < 2:860862/91‑1 (MQ=255)
ggCTCCCAGATTTTTTTCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACa > 1:860862/1‑91 (MQ=255)
ggCTCCCAGATTTTTTTCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACa > 2:120751/1‑91 (MQ=255)
tttCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATggggg < 2:487591/91‑1 (MQ=255)
cGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAgg > 2:856828/1‑91 (MQ=255)
tAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAg > 2:537388/1‑91 (MQ=255)
ggATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACAt > 1:416204/1‑91 (MQ=255)
tatatCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGa > 2:437720/1‑91 (MQ=255)
tatCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACa > 1:290696/1‑91 (MQ=255)
tatCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACa < 2:837796/91‑1 (MQ=255)
atatACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTccc < 1:848513/44‑1 (MQ=255)
atatACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAg > 2:482923/1‑91 (MQ=255)
atatACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAg > 1:644550/1‑91 (MQ=255)
tataCACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAgg > 2:323185/1‑91 (MQ=255)
ataCACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAACTGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAggg > 2:175738/1‑91 (MQ=255)
ataCACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAggg > 2:515537/1‑91 (MQ=255)
cacaAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCa > 1:293710/1‑91 (MQ=255)
acaAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAg < 2:167460/91‑1 (MQ=255)
aTGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTa > 2:617703/1‑37 (MQ=38)
aTGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTa < 1:617703/37‑1 (MQ=38)
aTGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGaaa < 1:133709/67‑1 (MQ=255)
aTGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGaaa > 2:133709/1‑67 (MQ=255)
gTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACa > 2:487656/1‑91 (MQ=255)
agaTGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTgg > 2:7726/1‑91 (MQ=255)
attattTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGaaa > 2:425963/1‑91 (MQ=255)
attTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATc > 2:395187/1‑91 (MQ=255)
tCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCaa < 1:395187/91‑1 (MQ=255)
ttttcCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAAt < 1:537388/91‑1 (MQ=255)
|
CATGGCTCCCAGATTTTTTTCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTTCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAAT > NZ_CP009273/524265‑524436
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GTTTTTACATGGCTCCCAGATTTTTTTCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTTCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAA > NZ_CP009273/524258‑524450
|
GTTTTTACATGGCTCCCAGATTTTTTTCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACA > SRR3722118.880012/1‑101 (MQ=60)
tccgtctcgtgggctcggagatgagtataagagacagGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTCTCTTATTTTCCCCTAACAAATG < SRR3722118.867302/64‑1 (MQ=60)
ataggagtccgtctcgtgggctcggagatgtgtataagagacagATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATG < SRR3722118.630940/57‑1 (MQ=60)
ACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACAT > SRR3722118.424966/1‑101 (MQ=60)
GCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACA > SRR3722118.296654/1‑101 (MQ=60)
tgtataagagacagATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAG < SRR3722118.136241/87‑1 (MQ=60)
GGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAG > SRR3722118.658454/1‑101 (MQ=60)
TATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCA > SRR3722118.299726/1‑101 (MQ=60)
TCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCC < SRR3722118.403482/101‑1 (MQ=60)
TTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATA < SRR3722118.548790/101‑1 (MQ=60)
CCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGctgtctcttatacacatctccgagcccacgagacgga > SRR3722118.734779/1‑64 (MQ=60)
CCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAA > SRR3722118.709819/1‑101 (MQ=60)
|
GTTTTTACATGGCTCCCAGATTTTTTTCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTTCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAA > NZ_CP009273/524258‑524450
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
