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 F5 I102 R1
|
278 |
39.1 |
2251254 |
95.8% |
2156701 |
87.1 |
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%
| 104.0
/ NA
| 28 | F85F (TTT→TTC) | BW25113_RS24960 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (21/7); total (21/7) |
TGGCTCCCAGATTTTTTTCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTTCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATG > NZ_CP009273/524267‑524437
|
tGGCTCCCAGATTTTTTTCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAAc < 2:156861/91‑1 (MQ=255)
tttttttCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAatgatgatg < 1:123134/91‑1 (MQ=255)
tttttttCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAatgatgatg < 2:5279/91‑1 (MQ=255)
aGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGa < 1:112370/91‑1 (MQ=255)
tGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACa > 1:946626/1‑91 (MQ=255)
ggATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAatgatga > 2:340746/1‑68 (MQ=255)
ggATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAatgatga < 1:340746/68‑1 (MQ=255)
gATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACAtt > 2:797609/1‑91 (MQ=255)
atatCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGAc < 2:709553/91‑1 (MQ=255)
tatCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACa > 1:378550/1‑91 (MQ=255)
tatCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACa > 1:162314/1‑91 (MQ=255)
tatCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACa > 1:1116883/1‑91 (MQ=255)
ataCACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAggg > 1:55956/1‑91 (MQ=255)
ataCACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAggg > 1:30205/1‑91 (MQ=255)
caAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAgg > 2:108187/1‑91 (MQ=255)
caAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAgg > 2:883014/1‑91 (MQ=255)
aaaTGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAggg > 2:75081/1‑91 (MQ=255)
aaTGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGa > 2:890160/1‑91 (MQ=255)
aTGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGaa > 1:92305/1‑91 (MQ=255)
aTGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGaa > 2:810719/1‑91 (MQ=255)
gTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACa > 2:517036/1‑91 (MQ=255)
agaagaTGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAg > 1:766326/1‑91 (MQ=255)
agaTGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTgg > 2:91030/1‑91 (MQ=255)
tgatTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGa > 1:63799/1‑91 (MQ=255)
gatTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGaa > 1:428487/1‑91 (MQ=255)
attattTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGaaa > 1:380579/1‑91 (MQ=255)
tttttCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTa > 1:649954/1‑91 (MQ=255)
tCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCaa < 1:959557/91‑1 (MQ=255)
tttcCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATg < 2:1049766/91‑1 (MQ=255)
|
TGGCTCCCAGATTTTTTTCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTTCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATG > NZ_CP009273/524267‑524437
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ 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
GATTTTTTTCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTTCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGA > NZ_CP009273/524276‑524444
|
gtataagagacagACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGG < SRR3722125.347828/88‑1 (MQ=60)
TTTTTTTCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTT < SRR3722125.125455/101‑1 (MQ=60)
CACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACA > SRR3722125.967682/1‑101 (MQ=60)
AGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGAC < SRR3722125.114478/101‑1 (MQ=60)
GCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACA > SRR3722125.165424/1‑101 (MQ=60)
GCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACA > SRR3722125.386492/1‑101 (MQ=60)
GCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACA > SRR3722125.1142096/1‑101 (MQ=60)
ATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGG > SRR3722125.56980/1‑101 (MQ=60)
ATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGG > SRR3722125.30749/1‑101 (MQ=60)
ATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAA > SRR3722125.94046/1‑101 (MQ=60)
ACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAG > SRR3722125.782952/1‑101 (MQ=60)
ATGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGA > SRR3722125.64972/1‑101 (MQ=60)
TGTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAA > SRR3722125.437526/1‑101 (MQ=60)
GTAGAAGATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAA > SRR3722125.388566/1‑101 (MQ=60)
GATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTctgtctcttatacacatctccgagcccacgagactaggcatgatctcgt > SRR3722125.930889/1‑52 (MQ=60)
GATGATTATTTTTTTCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTA > SRR3722125.663959/1‑101 (MQ=60)
TCTTATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCC < SRR3722125.980929/101‑1 (MQ=60)
TATTTTCCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGA > SRR3722125.648909/1‑101 (MQ=60)
|
GATTTTTTTCCGCACGTAGCGGTGGATATATCAATATACACAAATGTAGAAGATGATTATTTTTTTCTTATTTTTCCCTAACAAATGATGATGGGGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGA > NZ_CP009273/524276‑524444
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
