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 |
|
A17 F109 I0 R1
|
32 |
27.2 |
584098 |
96.5% |
563654 |
139.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
2,021,817 |
C→T |
100% |
V139I (GTT→ATT) |
USA300HOU_1873 ← |
acyl‑CoA hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 2,021,817 | 0 | C | T | 91.3%
| 53.9
/ ‑0.8
| 23 | V139I (GTT→ATT) | USA300HOU_1873 | acyl‑CoA hydrolase |
| Reads supporting (aligned to +/- strand): ref base C (2/0); new base T (12/9); total (14/9) |
| Fisher's exact test for biased strand distribution p-value = 5.02e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.89e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TAACAATCTGTCTTTATATTTTTAGTCTCTAATATGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAACATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCTTGTTATTAAATACATCGTCAATTCTAATTTGAACGACCAC > CP000730/2021680‑2021952
|
tAACAATCTGGCTTTATATTTTTAGTCTCTAATATGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAatat < 1:130570/140‑1 (MQ=255)
cAATCTGTCTTTATATTTTTAGTCTCTAATATGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAAtatcat < 2:171142/140‑1 (MQ=255)
tCTTTATATTTTTAGTCTCTAATATGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTgg > 1:75121/1‑140 (MQ=255)
tatTTTTTGTCTGAGATATGTTGCACTTGAGCTAAATATGCAACTTGTTGTTTACTTTCAATGCGACGTGCTTTTCTTCTTTCAACATGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATac < 2:73523/140‑1 (MQ=255)
tatTTTTAGTCTCTAATATGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATac < 1:269189/140‑1 (MQ=255)
tAGTCTCTAATATGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAgg < 1:31433/140‑1 (MQ=255)
atGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGATACATGTTTAg > 1:277047/1‑140 (MQ=255)
gAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTtca > 1:272230/1‑140 (MQ=255)
gAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTtca > 2:90945/1‑140 (MQ=255)
aGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATAATCTTCTGGATATACACAAGGTACTTGTTTAGGTTTGCAtttct > 2:28641/1‑137 (MQ=255)
atTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTCTAGGTTTGCTTTCATCATCTAAc < 2:170151/140‑1 (MQ=255)
aTTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGcaac > 1:176748/1‑140 (MQ=255)
tttttACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGt < 2:32386/138‑1 (MQ=255)
ttACTTTCAATGCGACGTGCTTTTCTTCGTTCACCACGTTGTGGTGCTGTATAATAGAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTGTCGGTTTGCCTTCATAATCTAACGCAACAAATGTTaa > 2:278132/1‑140 (MQ=255)
tttCAATGCGGCGTCCGTTGTTGCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTaa < 1:254412/140‑1 (MQ=255)
ttCAATGCGACGTGCTTTTCTTCCTTCAACTCGTTGTCTCTCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCACGTACATTTTTAGGTTTGCCTTCATCATCTAACGCATCAAATGTTAAGTAAc < 2:109939/140‑1 (MQ=255)
gACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAACATCATCTTCTGGATATTCACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAAGGCa > 2:216575/1‑140 (MQ=255)
aCGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCac > 2:205593/1‑139 (MQ=255)
gCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAACATCATCTTCTGGATATACACCAGGTAAATGTTTAGGTTTGCCTTCATCGTCTAACGCAACAAATGTTAAGTAACATAATGCAACTaa > 2:25026/1‑140 (MQ=255)
gCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTAACTCTGATATTCTGGATACACCGCATGTACAAGTGAAGCAGAGCCGTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTaa > 1:129108/1‑140 (MQ=255)
cGTTCATCATGTTGTGGTGCTGTATCATTAAACCTTTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAACGTTAAGTAACTTAATGCAGCTAAATCATGCtt < 1:65332/140‑1 (MQ=255)
cacGTTGTGGTGCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCTTGttatta > 2:286738/1‑140 (MQ=255)
tggtgCTGTATCATAAAACCATTTTTCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATATTAACTAACTTAGTGCAGCTAAATCCTGCTTGTTATTAAATACAt > 1:88164/1‑140 (MQ=255)
tttCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCTTGTTATTAAATACATCGTCAATTCTAATTTGAACGAcc < 1:267494/140‑1 (MQ=255)
tCAATATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTCCCTCAACCAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCTTGTTATTAAATACATCGTCAATTCTAATTTGAACGACCAc > 1:241933/1‑140 (MQ=255)
|
TAACAATCTGTCTTTATATTTTTAGTCTCTAATATGTTGCACTTGAGCTAAATATTCAATTGTTTGTTTACTTTCAATGCGACGTGCTTTTCTTCGTTCAACACGTTGTGGTGCTGTATCATAAAACCATTTTTCAACATCATCTTCTGGATATACACCAGGTACATGTTTAGGTTTGCCTTCATCATCTAACGCAACAAATGTTAAGTAACTTAATGCAGCTAAATCATGCTTGTTATTAAATACATCGTCAATTCTAATTTGAACGACCAC > CP000730/2021680‑2021952
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
