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 F28 I1 R1
|
354 |
41.7 |
3110465 |
93.1% |
2895842 |
61.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,812,966 |
T→A |
I142F (ATT→TTT) |
luxS ← |
S‑ribosylhomocysteinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,812,966 | 0 | T | A | 80.0%
| 52.1
/ 9.2
| 25 | I142F (ATT→TTT) | luxS | S‑ribosylhomocysteinase |
| Reads supporting (aligned to +/- strand): ref base T (0/5); new base A (20/0); total (20/5) |
| Fisher's exact test for biased strand distribution p-value = 1.88e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01 |
GTTCCAGAATGCTACGCGCAATATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCACACTGGTAGACGTTCAGTTC > W3110S.gb/2812945‑2813026
|
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCcacag > 1:2843250/1‑64 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:2149050/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:41013/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:346213/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:2916266/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:2885606/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:2517110/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:2418850/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:2393480/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:2238832/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:2045647/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:1894258/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:1566241/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:443505/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:648130/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:1332401/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:1223999/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:1150137/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCacac > 1:815129/1‑65 (MQ=255)
gTTCCAGAATGCTACGCGCAAAATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGAGCCacac > 1:1089586/1‑65 (MQ=255)
gcAATATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCACACTGGTAGACGTTCAGTTc < 1:1516104/65‑1 (MQ=255)
gcAATATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCACACTGGTAGACGTTCAGTTc < 1:581709/65‑1 (MQ=255)
gcAATATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCACACTGGTAGACGTTCAGTTc < 1:1450212/65‑1 (MQ=255)
gcAATATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCACACTGGTAGACGTTCAGTTc < 1:1040777/65‑1 (MQ=255)
gcAATATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCACACTGGTAGACGTTCAGTTc < 1:937205/65‑1 (MQ=255)
|
GTTCCAGAATGCTACGCGCAATATCCTGCGCTTCCTGCAACGAGTGCATCTGGTAAGTGCCACACTGGTAGACGTTCAGTTC > W3110S.gb/2812945‑2813026
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
