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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
253,013 |
A→G |
54.2% |
N125N (AAT→AAC) |
yajB ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 253,013 | 0 | A | G | 54.2%
| 3.6
/ 58.1
| 72 | N125N (AAT→AAC) | yajB | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (16/17); new base G (24/15); total (40/32) |
| Fisher's exact test for biased strand distribution p-value = 3.43e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCGTTTAACACGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCAGATTGATAAAACGTGGCGGTGAGTCCGGCAAAATCGTCATCACTTGCTCGCGGG > minE/252945‑253074
|
ccGTTTAACACGTTCTGGATGAAATCCATATCTCGATAGCGCACCAGCCACTGCTCTGACCACAAGTaa > 1:1133767/1‑69 (MQ=255)
ccGTTTAACACGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTaa > 1:2021513/1‑69 (MQ=255)
ccGTTTAACACGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTaa > 1:1613007/1‑69 (MQ=255)
ccGTTTAACACGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTaa > 1:157739/1‑69 (MQ=255)
ccGTTTAACACGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTaa > 1:1415454/1‑69 (MQ=255)
cacGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa < 1:379933/68‑1 (MQ=255)
cacGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa < 1:2672577/68‑1 (MQ=255)
cacGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa < 1:1818970/68‑1 (MQ=255)
cacGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa < 1:3197189/68‑1 (MQ=255)
cacGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa < 1:1437563/68‑1 (MQ=255)
cacGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa < 1:2968124/68‑1 (MQ=255)
cacGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa < 1:2817579/68‑1 (MQ=255)
cacGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa < 1:615763/68‑1 (MQ=255)
cacGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa < 1:2654531/68‑1 (MQ=255)
cacGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa < 1:1195761/68‑1 (MQ=255)
cTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCAGATTGa > 1:1597218/1‑68 (MQ=255)
cTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCAGATTGa > 1:1664991/1‑68 (MQ=255)
cTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCAGATTGa > 1:2818090/1‑68 (MQ=255)
cgATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCAGATTGATaa > 1:2751746/2‑69 (MQ=255)
gAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCAGATTGATaaaatg > 1:2472950/1‑67 (MQ=255)
gAAATCCATATCGCGATAGCGCACAAGCCACTGCTCTGACCACAAGTAATTGTTCAGATTGATAAAACg > 1:1799779/1‑69 (MQ=255)
aaaTCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa > 1:305653/1‑55 (MQ=255)
aaaTCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa > 1:1595548/1‑55 (MQ=255)
aaaTCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa > 1:2498018/1‑55 (MQ=255)
aaaTCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa > 1:1874934/1‑55 (MQ=255)
aaaTCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa > 1:2950221/1‑55 (MQ=255)
aaaTCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa > 1:2297069/1‑55 (MQ=255)
aaaTCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa > 1:539004/1‑55 (MQ=255)
aaaTCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa > 1:1935865/1‑55 (MQ=255)
aaaTCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCa > 1:1100485/1‑55 (MQ=255)
accaaccaCTGCTCTGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAAta < 1:2975837/69‑2 (MQ=255)
accaaccaCTGCTCTGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAAta < 1:2768636/69‑2 (MQ=255)
accaaccaCTGCTCTGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAAta < 1:2166070/69‑2 (MQ=255)
accaaccaCTGCTCTGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAAta < 1:2589113/69‑2 (MQ=255)
accaaccaCTGCTCTGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAAta < 1:2003731/69‑2 (MQ=255)
accaaccaCTGCTCTGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAAta < 1:2853650/69‑2 (MQ=255)
accaaccaCTGCTCTGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAAta < 1:2855718/69‑2 (MQ=255)
accaaccaCTGCTCTGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAAta < 1:2917401/69‑2 (MQ=255)
accaaccaCTGCTCTGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAAta < 1:1809219/69‑2 (MQ=255)
accaaccaCTGCTCTGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAAta < 1:3194728/69‑2 (MQ=255)
accaaccaCTGCTCTGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAAta < 1:490115/69‑2 (MQ=255)
accaaccaCTGCTCTGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAAta < 1:1254750/69‑2 (MQ=255)
accaaccaCTGCTCTGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAAta < 1:1002401/69‑2 (MQ=255)
ccAACCACTGCTCTGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAAta < 1:2429672/68‑2 (MQ=255)
ccAACCACTGCTCTGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAAta < 1:1763570/68‑2 (MQ=255)
ccACTGCTCTGACCACAAGTAATTGTTCAGATTGATAAAACGTGGCGGTGAGTCCGGCAAAATCGtcat < 1:1264403/69‑1 (MQ=255)
ccACTGCTCTGACCACAAGTAATTGTTCAGATTGATAAAACGTGGCGGTGAGTCCGGCAAAATCGtcat < 1:1528940/69‑1 (MQ=255)
gCTCTGACCACAAGTAATTGTTCAGATTGATAAAACGTGGCGGTGAGTCCGGCAAAATCGTCATCACtt > 1:1833913/1‑69 (MQ=255)
ctctGACCACAAGTAATTGTTCAGATTGATAAAACGTGGc < 1:2318949/40‑1 (MQ=255)
ctctGACCACAAGTAATTGTTCAGATTGATAAAACGTGGc < 1:2079556/40‑1 (MQ=255)
ctctGACCACAAGTAATTGTTCAGATTGATAAAACGTGGc < 1:1432341/40‑1 (MQ=255)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCg > 1:2431560/1‑39 (MQ=18)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:88859/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:666062/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:1258107/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:545916/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:924416/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:508192/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:136049/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:2588595/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:423/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:395572/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:3295866/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:1615491/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:3189399/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:3180355/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:3172654/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:1901592/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:1908354/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:1916792/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:1931129/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:2203408/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:1000458/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatca > 1:2727952/1‑63 (MQ=19)
ctGACCATAAGTAGTTGTTCAGATTGATAAAGCGTTGCGGTGAGTCTGGAAGAATAGtcatc > 1:920606/1‑62 (MQ=19)
acaAGTAATTGTTCAGATTGATAAAACGTGGCGGTGAGTCCGGCAAAATCGTCATCACTTGCTCGCggg < 1:3397077/69‑1 (MQ=255)
aaGTAATTGTTCAGATTGATAAAACGTGGCGGTGAGTCCGGCAAAATCGTCATCACTTGCTCGCggg < 1:1818901/67‑1 (MQ=255)
|
CCGTTTAACACGTTCTGGATGAAATCCATATCGCGATAGCGCACCAGCCACTGCTCTGACCACAAGTAATTGTTCAGATTGATAAAACGTGGCGGTGAGTCCGGCAAAATCGTCATCACTTGCTCGCGGG > minE/252945‑253074
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
