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 F1 I2 R1
|
765 |
46.1 |
2269152 |
93.8% |
2128464 |
105.7 |
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 | 97.1%
| 120.3
/ ‑3.1
| 35 | coding (996/1047 nt) | wzzE | Entobacterial Common Antigen (ECA) polysaccharide chain length modulation protein |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base G (17/17); total (18/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.19e-01 |
GGCCATGTTAAACACCCTGAATGTTGGTCCAACCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGTGGGGCATTGTC‑GGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAGCAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGATGTGAAAGTACTGACTGTATTTGGTACG > NC_000913/3969888‑3970159
|
ggCCATGTTAAACACCCTGAATGTTGGTCCAACCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTc > 1:376119/1‑139 (MQ=255)
ttAAACACCCTGAATGTTGGTCCAACCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTC‑ggggg‑gg < 2:247528/139‑2 (MQ=255)
ttAAACACCCTGAATGTTGGTCCAACCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTC‑ggggg‑gg < 1:601821/139‑2 (MQ=255)
tGAATGTTGGTCCAACCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCgggg < 1:379252/139‑1 (MQ=255)
ggTCCAACCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTc > 2:311350/1‑139 (MQ=255)
cAACCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCAt < 1:672270/139‑1 (MQ=255)
cgTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGTCATTGTCGGGGGG‑GCTGATCGGGGc < 1:646646/114‑1 (MQ=255)
cgTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGc > 2:646646/1‑114 (MQ=255)
tATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACaa < 1:311350/139‑1 (MQ=255)
tCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACccgc < 1:261495/119‑1 (MQ=255)
tCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACccgc > 2:261495/1‑119 (MQ=255)
tCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAacaaca > 1:50505/1‑139 (MQ=255)
tCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAacaaca < 2:376119/139‑1 (MQ=255)
cGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTg > 1:550649/1‑92 (MQ=255)
cGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTg < 2:550649/92‑1 (MQ=255)
cGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACccgccg > 1:1052938/1‑111 (MQ=255)
cGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGt > 1:564446/1‑139 (MQ=255)
cGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCGGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACccgccg < 2:1052938/111‑1 (MQ=255)
cGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCAt < 1:720165/97‑1 (MQ=255)
cGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCAt > 2:720165/1‑97 (MQ=255)
cGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGa < 2:523168/115‑1 (MQ=255)
cGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGa > 1:523168/1‑115 (MQ=255)
cGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCa < 1:55420/139‑1 (MQ=255)
tGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACccgccg < 2:413601/70‑1 (MQ=255)
tGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACccgccg < 2:835136/70‑1 (MQ=255)
tGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACccgccg > 1:835136/1‑70 (MQ=255)
tGCCTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACccgccg > 1:413601/1‑70 (MQ=255)
tGCCTTCCTGATGATTATGCGGGGCATTGTC‑GGGGGAGCTGATCGGGACTGGTGTCGCATTAAGCCGCCGTTGCTCGAAATAACAACGCTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGAtg > 1:722650/1‑139 (MQ=255)
ccTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTc > 2:270852/1‑74 (MQ=255)
ccTTCCTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTc < 1:270852/74‑1 (MQ=255)
ccTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACccgccg < 1:692804/64‑1 (MQ=255)
ccTGATGATTATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACccgccg > 2:692804/1‑64 (MQ=255)
tATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCg > 2:1024154/1‑81 (MQ=255)
tATGCGGGGCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCg < 1:1024154/81‑1 (MQ=255)
tgcggggCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGATGTGAAAGTACTGACTGTa > 2:1033210/4‑139 (MQ=255)
ggCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGATGTGAAAGTACTGACTGTATTTgg > 1:833459/1‑139 (MQ=255)
gCATTGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGATGTGAAAGTACTGACTGTATTTGGt > 1:263857/1‑139 (MQ=255)
ttGTCGGGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAACAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGATGTGAAAGTACTGACTGTATTTGGTAcg < 2:263857/139‑1 (MQ=255)
|
GGCCATGTTAAACACCCTGAATGTTGGTCCAACCCTGGATCCGCGTTTTCAGACCTATCGCTATTTGCGTACGCCGGAAGAACCGGTAAAACGCGATAGCCCACGTCGTGCCTTCCTGATGATTATGTGGGGCATTGTC‑GGGGG‑GCTGATCGGGGCTGGTGTCGCATTAACCCGCCGTTGCTCGAAATAGCAACACTGCTGCGGTGAGCGCAAAGGCGCTCGCCGCTTATTCGAAGAGAATCGATGTGAAAGTACTGACTGTATTTGGTACG > NC_000913/3969888‑3970159
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
