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 |
2,324,489 |
C→A |
47.5% |
A4S (GCA→TCA) |
rcsC ← |
hybrid sensory kinase in two‑component regulatory system with RcsB and YojN |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,324,489 | 0 | C | A | 47.5%
| 31.4
/ 45.3
| 40 | A4S (GCA→TCA) | rcsC | hybrid sensory kinase in two‑component regulatory system with RcsB and YojN |
| Reads supporting (aligned to +/- strand): ref base C (11/10); new base A (11/8); total (22/18) |
| Fisher's exact test for biased strand distribution p-value = 7.61e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAGGTATTTCAAAGGGGCGAAGCTC > W3110S.gb/2324426‑2324559
|
aCGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGaa < 1:199293/70‑1 (MQ=255)
aCGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGaa < 1:1890321/70‑1 (MQ=255)
aCGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGaa < 1:77394/70‑1 (MQ=255)
aCGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGaa < 1:1836449/70‑1 (MQ=255)
aaCGATGTAAAAACCGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAg > 1:279425/1‑70 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAgc > 1:646274/1‑71 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAgc > 1:348388/1‑71 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAgc > 1:1766699/1‑71 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAgc > 1:153477/1‑71 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTAAACATGTAgc > 1:1660650/1‑71 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGATCTGAACATGTAgc > 1:682699/1‑71 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGATCTGAACATGTAgc > 1:496511/1‑71 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGATCTGAACATGTAgc > 1:784369/1‑71 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGATCTGAACATGTAgc > 1:1658299/1‑71 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGATCTGAACATGTAgc > 1:835675/1‑71 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGATCTGAACATGTAgc > 1:1039458/1‑71 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGATCTGAACATGTAgc > 1:1415218/1‑71 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGATCTGAACATGTAgc > 1:854823/1‑71 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGATCTGAACATGTAgc > 1:967889/1‑71 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGATCTGAACATGTAgc > 1:1217432/1‑71 (MQ=255)
aaCGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGATCTGAACATCTa > 1:264404/1‑69 (MQ=255)
aGCAATCAACAGCCAGAGCACTAACGCCAATGATCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGaa < 1:1491877/71‑1 (MQ=255)
aGCAATCAACAGCCAGAGCACTAACGCCAATGATCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGaa < 1:1849206/71‑1 (MQ=255)
aGCAATCAACAGCCAGAGCACTAACGCCAATGATCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGaa < 1:1363819/71‑1 (MQ=255)
aGCAATCAACAGCCAGAGCACTAACGCCAATGATCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGaa < 1:280006/71‑1 (MQ=255)
aaCAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGc < 1:1812541/71‑1 (MQ=255)
aaCAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGc < 1:300058/71‑1 (MQ=255)
aaCAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGc < 1:485516/71‑1 (MQ=255)
gCCAGAGCACTAACGCCAATGATCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAgg < 1:1555898/71‑1 (MQ=255)
gCCAGAGCACTAACGCCAATGATCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAgg < 1:1318858/71‑1 (MQ=255)
gCCAGAGCACTAACGCCAATGATCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAgg < 1:1471532/71‑1 (MQ=255)
gCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAGGTAttt > 1:873215/1‑70 (MQ=255)
gCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAGGTAttt > 1:973017/1‑70 (MQ=255)
gCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAGGTAttt > 1:18890/1‑70 (MQ=255)
gCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAGGTAttt > 1:1048032/1‑70 (MQ=255)
cTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAgg < 1:1795487/62‑1 (MQ=255)
cTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAgg < 1:845298/62‑1 (MQ=255)
cTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAgg < 1:1401098/62‑1 (MQ=255)
ccAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAGGTATTTCAAAGGGGc > 1:80046/1‑70 (MQ=255)
aTGATCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAgg < 1:1211374/53‑1 (MQ=255)
ctctGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAGGTATTTCAAAGGGGCGAAGCTc > 1:162279/1‑71 (MQ=255)
ctctGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAGGTATTTCAAAGGGGCGAAGCTc > 1:1026497/1‑71 (MQ=255)
|
ACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAAAAGAAGCAAGGTATTTCAAAGGGGCGAAGCTC > W3110S.gb/2324426‑2324559
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
