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 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,313,823 |
T→C |
36.0% |
E349G (GAA→GGA) |
yojL ← |
predicted thiamine biosynthesis lipoprotein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,313,823 | 0 | T | C | 36.0%
| 21.2
/ 21.5
| 25 | E349G (GAA→GGA) | yojL | predicted thiamine biosynthesis lipoprotein |
| Reads supporting (aligned to +/- strand): ref base T (7/9); new base C (2/7); total (9/16) |
| Fisher's exact test for biased strand distribution p-value = 4.01e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAGGATAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCTATCG > W3110S.gb/2313756‑2313876
|
aaGGATAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGc > 1:1335273/1‑71 (MQ=255)
aaGGATAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGc > 1:403800/1‑71 (MQ=255)
aGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGAc > 1:115510/1‑69 (MQ=255)
ccGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAAc < 1:545190/71‑1 (MQ=255)
ccGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAAc < 1:50208/71‑1 (MQ=255)
ccGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAAc < 1:345775/71‑1 (MQ=255)
ccGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAAc < 1:1694043/71‑1 (MQ=255)
ccGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAAc < 1:1000452/71‑1 (MQ=255)
ccATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTgtggt < 1:1853719/70‑1 (MQ=255)
ccATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTgtggt < 1:201625/70‑1 (MQ=255)
ccATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTgtggt < 1:1918629/70‑1 (MQ=255)
ccATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTgtggt < 1:1596134/70‑1 (MQ=255)
aCGCAAAAACCAACGATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATc > 1:492487/1‑71 (MQ=255)
aCGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATc > 1:1785343/1‑71 (MQ=255)
aCGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATc > 1:1778620/1‑71 (MQ=255)
aCGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATc > 1:1445709/1‑71 (MQ=255)
aCGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATc > 1:1446200/1‑71 (MQ=255)
aCGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATc > 1:1181717/1‑71 (MQ=255)
cGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATcc < 1:153674/71‑1 (MQ=255)
cGCAAAAACCAACAATCTTGCGCTTTAATTTCTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATcc < 1:181567/71‑1 (MQ=255)
aaaCCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGtt < 1:776012/71‑1 (MQ=255)
aaaCCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGtt < 1:778167/71‑1 (MQ=255)
cTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTgtggt < 1:961845/48‑1 (MQ=255)
gcgcTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCTATCg < 1:1944057/69‑1 (MQ=255)
gcgcTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCTATCg < 1:1961842/69‑1 (MQ=255)
|
AAGGATAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCTATCG > W3110S.gb/2313756‑2313876
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
