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 |
|
A143 F1 I1 R1
|
16 |
39.8 |
2536279 |
96.2% |
2439900 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,404,055 |
T→A |
I21N (ATC→AAC) |
rpsR → |
30S ribosomal protein S18 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,404,055 | 0 | T | A | 97.5%
| 150.2
/ ‑5.8
| 41 | I21N (ATC→AAC) | rpsR | 30S ribosomal protein S18 |
| Reads supporting (aligned to +/- strand): ref base T (1/0); major base A (17/22); minor base G (1/0); total (19/22) |
| Fisher's exact test for biased strand distribution p-value = 4.50e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
AGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAGATTGTCCCAAGCCGTATC > REL606/4403983‑4404125
|
agaCTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGa > 1:784390/1‑76 (MQ=255)
aCTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACt < 1:663140/76‑1 (MQ=255)
tAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACtat > 1:593450/1‑76 (MQ=255)
aGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACtata > 2:669954/1‑76 (MQ=255)
gCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCNGTGTCACCGCGGAAGGCGTTCAAGAGAACGACTATaa < 1:1233256/76‑1 (MQ=255)
cATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAg < 1:1200489/76‑1 (MQ=255)
cATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAg < 2:358433/76‑1 (MQ=255)
gCACGTTATTTCCGTCGTCCCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCg > 1:884443/1‑76 (MQ=255)
tttCCTTCGTCGCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTAGGCTg < 2:149191/76‑1 (MQ=255)
tttCCGTCGTCGCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTg > 1:972085/1‑76 (MQ=255)
cgtcgtCGCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGaaaa < 1:120086/76‑1 (MQ=255)
gtcgCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTa > 2:525025/1‑76 (MQ=255)
gtcgCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTa > 2:37831/1‑76 (MQ=255)
gCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACAt < 1:239950/76‑1 (MQ=255)
cAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATc < 1:745018/76‑1 (MQ=255)
cAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATc < 1:673715/76‑1 (MQ=255)
aaGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCa < 1:659149/76‑1 (MQ=255)
aGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAGAACTACATCAc < 1:35035/76‑1 (MQ=255)
tCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGa > 1:969668/1‑76 (MQ=255)
tGCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGaaa < 1:364173/76‑1 (MQ=255)
gCCGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATAGCGCTACGCTGAAAAACTACATCACCGAAAg > 1:27210/1‑76 (MQ=255)
cGTTTCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCg > 1:357274/1‑76 (MQ=255)
tttCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGt < 1:543935/76‑1 (MQ=255)
ttCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCNGTa < 1:1142204/76‑1 (MQ=255)
ttCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTa > 1:592268/1‑76 (MQ=255)
ttCACCGCGGAAGGCGTTAAAGGGAACNACNACNAACATATNGCGACGATGAAAAACTACATCACCGAAAGCGGTa < 1:1101773/76‑1 (MQ=255)
tCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTaa > 1:115345/1‑76 (MQ=255)
tCACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTaa > 2:31728/1‑76 (MQ=255)
cACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAg < 1:261654/76‑1 (MQ=255)
cACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAg > 2:419224/1‑76 (MQ=255)
cACCGCGGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAg > 1:388792/1‑76 (MQ=255)
cgcgGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAGAtt < 2:507097/76‑1 (MQ=255)
gcgGAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAGATTg < 1:699241/76‑1 (MQ=255)
gcgGAAGGCGTCCCAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAGAttc < 2:16150/76‑2 (MQ=255)
cgGAAGGCGTTCAAGAGAGCGNCTNTAAAGATTTCGCTACGCTGAANAACTACANCNCCGAAAGCGGTAAGATTGt > 2:182360/1‑76 (MQ=255)
gAAGGCGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAGATTGTcc > 2:489048/1‑76 (MQ=255)
cGTTCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAGATTGTCCCAAGc < 1:837808/76‑1 (MQ=255)
ttCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAGATTGTCCCAAGCCg < 1:231624/76‑1 (MQ=255)
ttCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAGATTGTCCCAAGCCg < 2:511197/76‑1 (MQ=255)
tCAAGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAGATTGTCCCAAGCCGt > 1:833141/1‑76 (MQ=255)
aaGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAGATTGTCCCAAGCCGTAt < 1:514330/76‑1 (MQ=255)
aaGAGAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAGATTGTCCCAAGCCGTAt > 1:525475/1‑76 (MQ=255)
agagAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAGATTGTCCCAAGCCGTATc < 2:520111/76‑1 (MQ=255)
agagAACGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAGATTGTCCCAAGCCGTATc < 2:563630/76‑1 (MQ=255)
|
AGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCGGTAAGATTGTCCCAAGCCGTATC > REL606/4403983‑4404125
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
