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 |
|
A4 F1 I1 R1
|
73 |
24.7 |
1166784 |
93.9% |
1095610 |
107.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,401,103 |
G→A |
T151T (ACC→ACT) |
nuoF ← |
NADH:ubiquinone oxidoreductase, chain F |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,401,103 | 0 | G | A | 95.2%
| 65.6
/ ‑6.4
| 21 | T151T (ACC→ACT) | nuoF | NADH:ubiquinone oxidoreductase, chain F |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (9/11); minor base C (1/0); total (10/11) |
| Fisher's exact test for biased strand distribution p-value = 4.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
TAGCACGACGTCCTTCCAGGGAGTTGATTAACGCTGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCGGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAGCGCAAACGCG > NC_000913/2400970‑2401199
|
tAGCACGACGTCCTTCCAGGGAGTTGATTAACGCTGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGc < 2:6154/139‑1 (MQ=255)
cgTCCTTCCAGGGAGTTGATTAACGCTGTTTCTTCCCCGCATATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCaa > 1:358756/1‑139 (MQ=255)
ttCCAGGGAGTTGATTAACGCTGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCa > 1:78074/1‑139 (MQ=255)
gggAGTTGATTAACGCTGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGgcg < 1:219328/139‑1 (MQ=255)
ttGATTAACGCTGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGAt > 1:180719/1‑139 (MQ=255)
tGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCt < 2:180719/139‑1 (MQ=255)
tcCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCa < 2:130472/111‑1 (MQ=255)
tcCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCa > 1:130472/1‑111 (MQ=255)
aGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAg < 1:455326/139‑1 (MQ=255)
cccTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACgg < 1:19226/97‑1 (MQ=255)
cccTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACgg > 2:19226/1‑97 (MQ=255)
ccccGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTa > 2:212320/1‑139 (MQ=255)
cccGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAg < 2:358756/139‑1 (MQ=255)
gACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACgg < 1:59442/82‑1 (MQ=255)
gACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACgg > 2:59442/1‑82 (MQ=255)
tcgaaatcgaaaCCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAgcg > 1:449888/1‑139 (MQ=255)
cgaaatcaaaaCCTGTTCCCATAATGTTTTTGCCAAGCAGTCCCGCCTCCGTGCCTTCGGCAATGGCTCGCCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAgcgc > 1:90195/1‑139 (MQ=255)
gaaaCCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAGCGCAAAcgcg < 2:449888/139‑1 (MQ=255)
ccTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGt < 2:532563/41‑1 (MQ=255)
gtgcgcATAATCTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCg > 1:337273/6‑78 (MQ=255)
gTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCg < 2:337273/78‑1 (MQ=255)
|
TAGCACGACGTCCTTCCAGGGAGTTGATTAACGCTGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCGGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAGCGCAAACGCG > NC_000913/2400970‑2401199
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
