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 |
|
A67 F1 I1 R1
|
17 |
65.0 |
4212288 |
95.3% |
4014310 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,163,728 |
A→G |
K958R (AAA→AGA) |
rpoB → |
DNA‑directed RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,163,728 | 0 | A | G | 97.3%
| 142.9
/ ‑4.3
| 37 | K958R (AAA→AGA) | rpoB | DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base G (20/16); total (21/16) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
TTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCGTGCTGTGCTGGTAGCCGG > REL606/4163656‑4163800
|
ttACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGaagagaga > 2:1330925/1‑76 (MQ=255)
ttACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGaagagaga > 1:524684/1‑76 (MQ=255)
aCTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGAcc > 1:140393/1‑76 (MQ=255)
cTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCt > 1:851609/1‑76 (MQ=255)
cgcgATGGCGTAGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGt > 1:1334781/1‑76 (MQ=255)
cgATGGCGTAGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCt > 2:2059839/1‑76 (MQ=255)
gATGGCGTAGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTg < 2:777214/76‑1 (MQ=255)
ggCGTAGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTgaag > 1:361507/1‑76 (MQ=255)
cGTAGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTgaagaa < 2:508855/76‑1 (MQ=255)
tAGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACt < 1:1636940/76‑1 (MQ=255)
aGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTg < 2:146330/76‑1 (MQ=255)
aGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTg > 1:2016163/1‑76 (MQ=255)
aaaaaGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCa > 1:261601/1‑76 (MQ=255)
aaaaGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAg < 1:707046/76‑1 (MQ=255)
aaGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGAt < 2:1172208/76‑1 (MQ=255)
aCGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGaa < 2:1250765/76‑1 (MQ=255)
cGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAg > 2:509234/1‑76 (MQ=255)
tGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCt > 1:814290/1‑76 (MQ=255)
aaTCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTc > 2:787447/1‑76 (MQ=255)
tCGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAg < 2:775902/76‑1 (MQ=255)
cGAAGAAATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGc > 1:1150702/1‑76 (MQ=255)
gaagaaATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGcc < 2:1673271/76‑1 (MQ=255)
gaagaaATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGcc > 2:1474037/1‑76 (MQ=255)
gaagaaATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGcc > 1:1963351/1‑76 (MQ=255)
agaaATGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGt > 1:1259587/1‑76 (MQ=255)
aTGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATcc > 1:1639071/1‑76 (MQ=255)
tGCAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCg > 1:659090/1‑76 (MQ=255)
cAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCgtg > 1:195392/1‑76 (MQ=255)
cAGCTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCgtg < 2:341320/76‑1 (MQ=255)
cTCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCgtgctg < 1:597855/76‑1 (MQ=255)
tCAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCgtgctgt < 1:1366485/76‑1 (MQ=255)
cAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCgtgctgtg > 2:1017046/1‑76 (MQ=255)
cAAACAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCgtgctgtg < 2:1854855/76‑1 (MQ=255)
cAAACAGGCAAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCgtgctgtg < 1:983226/76‑1 (MQ=255)
cAGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCGTGCTGTGCTgg > 1:92981/1‑76 (MQ=255)
aGGCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCGTGCTGTGCTGGt > 1:1587221/1‑76 (MQ=255)
ggCGAAGAAAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCGTGCTGCGCTGGTa > 2:900526/1‑76 (MQ=255)
gCGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCGTGCTGTGCTGGTAg < 2:1009897/76‑1 (MQ=255)
cGAAGAGAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCGTGCTGTGCTGGTAGc < 1:1304809/76‑1 (MQ=255)
gaagagAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCGTGCTGTGCTGGTAGcc < 2:1715687/76‑1 (MQ=255)
aagagagaCCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCGTGCTGTGCTGGTAGCCg > 1:566179/1‑76 (MQ=255)
agagagaCCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCGTGCTGTGCTGGTAGCCgg > 2:232383/1‑76 (MQ=255)
|
TTACTCGCGATGGCGTAGAAAAAGACAAACGTGCGCTGGAAATCGAAGAAATGCAGCTCAAACAGGCGAAGAAAGACCTGTCTGAAGAACTGCAGATCCTCGAAGCGGGTCTGTTCAGCCGTATCCGTGCTGTGCTGGTAGCCGG > REL606/4163656‑4163800
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
