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 |
|
A8 F1 I1 R1
|
771 |
44.8 |
2153074 |
94.1% |
2026042 |
109.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,970,032 |
(G)6→7 |
coding (1002/1047 nt) |
wzzE → |
Entobacterial Common Antigen (ECA) polysaccharide chain length modulation protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,970,026 | 1 | . | G | 96.9%
| 108.3
/ ‑3.2
| 32 | coding (996/1047 nt) | wzzE | Entobacterial Common Antigen (ECA) polysaccharide chain length modulation protein |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (19/12); total (19/13) |
| Fisher's exact test for biased strand distribution p-value = 4.06e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
GGCCATGTTAAACACCCTGAATGTTGGTCCAACCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGTGGGGCATTGTC‑GGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAGCAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGATGTGAAAGTACTGACTGTATTTGGT > NC_000913/3969888‑3970156
|
ggCCATGTTAAACACCCTGAATGTTGGTCCAACCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTc > 2:829781/1‑139 (MQ=255)
cacCCTGAATGTTGGTCCAACCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGAt < 1:829781/139‑1 (MQ=255)
cTGAATGTTGGTCCAACCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGATCggg < 1:269087/139‑1 (MQ=255)
cAACCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCAt > 1:985486/1‑139 (MQ=255)
aCCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTa > 2:950544/1‑139 (MQ=255)
aCCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTC‑gg < 1:1034321/110‑1 (MQ=255)
aCCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTC‑gg > 2:1034321/1‑110 (MQ=255)
tGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTT‑gggg‑ggg < 1:625213/111‑2 (MQ=255)
tGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTT‑gggg‑ggg > 2:625213/1‑110 (MQ=255)
gATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAAcc > 2:9038/1‑136 (MQ=255)
gATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAAcc < 1:9038/136‑1 (MQ=255)
cgTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGc > 1:677444/1‑139 (MQ=255)
cgTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTC‑gg > 1:596432/1‑98 (MQ=255)
cgTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTC‑gg < 2:596432/98‑1 (MQ=255)
ttttCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTc < 1:950544/139‑1 (MQ=255)
aTCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATaacaac > 1:347785/1‑139 (MQ=255)
aTCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATaacaac > 2:818390/1‑139 (MQ=255)
tCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTC‑GGGGTGGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAcca < 2:622192/139‑1 (MQ=255)
ttGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACtgctgc > 1:1069992/1‑139 (MQ=255)
ggTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTC‑gggg < 1:61939/59‑1 (MQ=255)
ggTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTC‑gggg > 2:61939/1‑59 (MQ=255)
aaCGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGTTCGCCGCt < 2:347785/139‑1 (MQ=255)
aTAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGgt > 1:813607/1‑66 (MQ=255)
aTAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGgt < 2:813607/66‑1 (MQ=255)
gtataagagacagtgatTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCGGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTGTTCGAAGAGAATCGa < 2:717768/126‑1 (MQ=255)
tGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGAtg > 1:1001059/1‑139 (MQ=255)
gCCTTCCTGATGATTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGAtgt > 1:840274/1‑139 (MQ=255)
gatgatTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGATGTGAAAGTac < 2:677444/139‑1 (MQ=255)
gatTATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGATGTGAAAGTactga < 2:985486/139‑1 (MQ=255)
tATGCGGGGCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGATGTGAAAGTactgactg > 2:402956/1‑139 (MQ=255)
tgcggggCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCt > 2:432619/4‑58 (MQ=255)
tgcggggCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCt < 1:432619/55‑1 (MQ=255)
tgcggggCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCg > 2:405719/4‑109 (MQ=255)
tgcggggCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCg < 1:405719/106‑1 (MQ=255)
tgcggggCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGATGTGAAAGTACTGACTGTa > 1:985932/4‑139 (MQ=255)
tgcggggCATTGTCGGGGG‑GGCTGATCGGGGCAGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGATGTGAAAGTACTGACTGTa > 2:639398/4‑139 (MQ=255)
ggCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGATGTGAAAGTACTGACTGTATTTgg > 2:735872/1‑139 (MQ=255)
ggCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCACTAACCTGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTCATTCGAAGAGAATCGATGTGAAAGTacctgtctcttatac > 1:717768/1‑126 (MQ=255)
gCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGaa < 1:872585/105‑1 (MQ=255)
gCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGaa > 2:872585/1‑105 (MQ=255)
gCATTGTCGGGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGATGTGAAAGTACTGACTGTATTTGGt > 1:912283/1‑139 (MQ=255)
|
GGCCATGTTAAACACCCTGAATGTTGGTCCAACCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGTGGGGCATTGTC‑GGGG‑GGCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAGCAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGATGTGAAAGTACTGACTGTATTTGGT > NC_000913/3969888‑3970156
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
