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 |
365,168 |
C→T |
26.4% |
V742I (GTA→ATA) ‡ |
fepA ← |
iron‑enterobactin outer membrane transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 365,168 | 0 | C | T | 26.4%
| 116.9
/ 36.9
| 98 | V742I (GTA→ATA) ‡ | fepA | iron‑enterobactin outer membrane transporter |
| Reads supporting (aligned to +/- strand): ref base C (22/50); new base T (18/8); total (40/58) |
| Fisher's exact test for biased strand distribution p-value = 9.45e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.80e-01 |
ATCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGTTATAGGTATACGCCCCGGCACCGGCGATATAGTTGGC > minE/365105‑365234
|
aTCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:204085/69‑1 (MQ=255)
aTCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:1490904/69‑1 (MQ=255)
aTCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:2323848/69‑1 (MQ=255)
aTCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:1507019/69‑1 (MQ=255)
aTCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:2084405/69‑1 (MQ=255)
aTCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:2430136/69‑1 (MQ=255)
aTCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:2496100/69‑1 (MQ=255)
aTCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:252310/69‑1 (MQ=255)
aTCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:1756462/69‑1 (MQ=255)
aTCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:261508/69‑1 (MQ=255)
aTCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:263629/69‑1 (MQ=255)
aTCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:2783450/69‑1 (MQ=255)
aTCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:1167182/69‑1 (MQ=255)
aTCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:2976494/69‑1 (MQ=255)
aTCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTAGGTGTTTACGCTCa < 1:616472/69‑1 (MQ=255)
ccGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCata < 1:3193085/69‑1 (MQ=255)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGCAGTGAGTATTAATGCTCATATACCacgt > 1:1190122/1‑69 (MQ=21)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCAtata > 1:1401212/1‑63 (MQ=21)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:2281444/1‑69 (MQ=25)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:395254/1‑69 (MQ=25)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:2172339/1‑69 (MQ=25)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:2100706/1‑69 (MQ=25)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:209894/1‑69 (MQ=25)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:114176/1‑69 (MQ=25)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:57234/1‑69 (MQ=25)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:3284071/1‑69 (MQ=25)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:2608967/1‑69 (MQ=25)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:3095133/1‑69 (MQ=25)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:195893/1‑69 (MQ=25)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:1881992/1‑69 (MQ=25)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:1256798/1‑69 (MQ=25)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:1260868/1‑69 (MQ=25)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:862452/1‑69 (MQ=25)
aaCTACGCGCACTTTGTCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCacgt > 1:159115/1‑69 (MQ=25)
aaCGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa > 1:1863334/1‑59 (MQ=255)
aaCGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa > 1:332060/1‑59 (MQ=255)
aaCGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa > 1:3188574/1‑59 (MQ=255)
aaCGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa > 1:536719/1‑59 (MQ=255)
aaCGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCacgt > 1:1616896/1‑69 (MQ=255)
aaCGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCacgt > 1:3278883/1‑69 (MQ=255)
aaCGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCacgt > 1:800278/1‑69 (MQ=255)
aaCGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCacgt > 1:2268017/1‑69 (MQ=255)
aaCGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCacgt > 1:2620567/1‑69 (MQ=255)
aaCGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCacgt > 1:2417860/1‑69 (MQ=255)
aaCGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCacg > 1:2517876/1‑68 (MQ=255)
gcgcACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTcc > 1:1749554/1‑69 (MQ=255)
gcgcACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTcc > 1:2136116/1‑69 (MQ=255)
gcgcACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTcc > 1:1173313/1‑69 (MQ=255)
gcgcACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTcc > 1:2325093/1‑69 (MQ=255)
gcgcACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTcc > 1:11437/1‑69 (MQ=255)
cACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGTGTGTTTACGCTCATATACCACGTACGTCCCgg < 1:900934/69‑1 (MQ=255)
cACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCgg < 1:1258097/69‑1 (MQ=255)
cACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCgg < 1:2875507/69‑1 (MQ=255)
cACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCgg < 1:1392747/69‑1 (MQ=255)
cACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCgg < 1:1236411/69‑1 (MQ=255)
cACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCgg < 1:1584762/69‑1 (MQ=255)
cACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCgg < 1:894142/69‑1 (MQ=255)
aCTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:892423/49‑1 (MQ=255)
tCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCACGTACGTCCCGGCTCGtt < 1:1886658/68‑1 (MQ=255)
tCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCACGTACGTCCCGGCTCGtt < 1:1401423/68‑1 (MQ=255)
tCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCACGTACGTCCCGGCTCGtt < 1:882900/68‑1 (MQ=255)
tCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCACGTACGTCCCGGCTCGtt < 1:809667/68‑1 (MQ=255)
tCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCACGTACGTCCCGGCTCGtt < 1:2083893/68‑1 (MQ=255)
tCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCACGTACGTCCCGGCTCGtt < 1:1859740/68‑1 (MQ=255)
tCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCACGTACGTCCCGGCTCGtt < 1:68819/68‑1 (MQ=255)
tCAACAATCTGACGTTAGCTTCAGAAGTGAGTATTAATGCTCATATACCACGTACGTCCCGGCTCGtt < 1:762665/68‑1 (MQ=255)
tCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:73610/67‑1 (MQ=255)
tCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:3051948/67‑1 (MQ=255)
tCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:2402551/67‑1 (MQ=255)
tCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:2935291/67‑1 (MQ=255)
tCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:1181239/67‑1 (MQ=255)
tCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:1195690/67‑1 (MQ=255)
tCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:1296697/67‑1 (MQ=255)
tCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:1930080/67‑1 (MQ=255)
tCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:1978392/67‑1 (MQ=255)
tCAACAATCTGACGTTAGCATCAGAAGTGGGTCTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:3409283/67‑1 (MQ=255)
aacaaTCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGTtat < 1:1483408/68‑1 (MQ=255)
aacaaTCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGTtat < 1:691065/68‑1 (MQ=255)
caaTCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGTTATAgg > 1:2801040/1‑69 (MQ=255)
caaTCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGTTATAgg > 1:1500183/1‑69 (MQ=255)
tCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCa < 1:1611466/36‑1 (MQ=255)
cATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGTTATAGGTATACGCCCCGGc < 1:969651/68‑1 (MQ=255)
ggTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:2090025/38‑1 (MQ=255)
ggTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:2050489/38‑1 (MQ=255)
ggTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:2027965/38‑1 (MQ=255)
ggTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:678745/38‑1 (MQ=255)
ggTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:1017309/38‑1 (MQ=255)
ggTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:3343355/38‑1 (MQ=255)
ggTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:1911197/38‑1 (MQ=255)
ggTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:1867394/38‑1 (MQ=255)
ggTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:2499216/38‑1 (MQ=255)
ggTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:2567703/38‑1 (MQ=255)
ggTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:2732662/38‑1 (MQ=255)
ggTGTTTACGCTCATATACCACGTACGTCCCGGCTCGt < 1:2910499/38‑1 (MQ=255)
gtTTACGCTCATATACCACGTACGTCCCGGCTCGTTATAGGTATACGCCCCGGCACCGGCGATATAGtt > 1:362947/1‑69 (MQ=255)
gtTTACGCTCATATACCACGTACGTCCCGGCTCGTTATAGGTATACGCCCCGGCACCGGCGATATAGtt > 1:3283090/1‑69 (MQ=255)
gtTTACGCTCATATACCACGTACGTCCCGGCTCGTTATAGGTATACGCCCCGGCACCGGCGATATAGtt > 1:2588711/1‑69 (MQ=255)
tACGCTCATATACCACGTACGTCCCGGCTCGTTATAGGTATACGCCCCGGCACCGGCGATATAGTTGGc > 1:2974628/1‑69 (MQ=255)
|
ATCCGGCATGAACGACGCGCACTTTGTCAACAATCTGACGTTAGCATCAGAAGTGGGTGTTTACGCTCATATACCACGTACGTCCCGGCTCGTTATAGGTATACGCCCCGGCACCGGCGATATAGTTGGC > minE/365105‑365234
|
| 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
