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 |
423,289 |
G→A |
55.1% |
F113F (TTC→TTT) |
nagD ← |
UMP phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 423,289 | 0 | G | A | 55.1%
| 22.9
/ 104.9
| 126 | F113F (TTC→TTT) | nagD | UMP phosphatase |
| Reads supporting (aligned to +/- strand): ref base G (18/38); new base A (31/38); total (50/76) |
| Fisher's exact test for biased strand distribution p-value = 1.97e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.12e-01 |
Only 100 of 126 total aligned reads displayed.
CGAAATAGGCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTGTACAGTTCATGAATCAGTGCGCCTTC > minE/423228‑423354
|
cgaAATAGGCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAg < 1:3215182/69‑1 (MQ=255)
cgaAATAGGCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAg < 1:1494237/69‑1 (MQ=255)
cgaAATAGGCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAg < 1:1749224/69‑1 (MQ=255)
cgaAATAGGCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAg < 1:406439/69‑1 (MQ=255)
cgaAATAGGCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAg < 1:814027/69‑1 (MQ=255)
ggCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTcac < 1:382251/69‑1 (MQ=255)
ggCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTcac < 1:2344567/69‑1 (MQ=255)
ggCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTcac < 1:1560165/69‑1 (MQ=255)
ggCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTcac < 1:1517442/69‑1 (MQ=255)
ggCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTcac < 1:347774/69‑1 (MQ=255)
ggCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTcac < 1:2375629/69‑1 (MQ=255)
ggCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTcac < 1:2168091/69‑1 (MQ=255)
ggCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTcac < 1:1638748/69‑1 (MQ=255)
ggCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTcac < 1:2691409/69‑1 (MQ=255)
ggCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTcac < 1:1833212/69‑1 (MQ=255)
gctgctTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTcac < 1:1406270/68‑1 (MQ=255)
gctgctTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTcac < 1:2944378/68‑1 (MQ=255)
atGTCCCAGTTTTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:3120795/55‑1 (MQ=39)
atGTCCCAGTTGTAGGAACTCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:1980264/55‑1 (MQ=39)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGaaa > 1:1868548/1‑69 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGaaa > 1:1767121/1‑69 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACATAATCAGGGTTCACAt < 1:137026/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:3423538/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:2406193/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:357472/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:3363122/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:3318782/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:2453458/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:2482380/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:1929326/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:2491652/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:2763570/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:2769702/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:175754/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:1218406/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:877186/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:1153612/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:1250021/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:1867163/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:862988/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:1411891/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:1507905/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:794173/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:648286/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:1648442/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:1656409/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:580784/55‑1 (MQ=255)
atGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACAt < 1:481888/55‑1 (MQ=255)
gTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGAAAcc > 1:212491/1‑69 (MQ=255)
tCCCAGTTGTAGGACCGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCg > 1:3187824/1‑69 (MQ=255)
tCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATc > 1:2660256/1‑53 (MQ=255)
tCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATc > 1:2623093/1‑53 (MQ=255)
tCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATc > 1:1027706/1‑53 (MQ=255)
tCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATc > 1:2968247/1‑53 (MQ=255)
tCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATc > 1:2589538/1‑53 (MQ=255)
tCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATc > 1:3268402/1‑53 (MQ=255)
tCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATc > 1:3305760/1‑53 (MQ=255)
tCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATc > 1:1001752/1‑53 (MQ=255)
tCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATc > 1:2198354/1‑53 (MQ=255)
tCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATc > 1:195714/1‑53 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTc > 1:1595542/1‑45 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATCgg > 1:125181/1‑52 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATCGGt > 1:95062/1‑53 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATCGGt > 1:924110/1‑53 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATCGGt > 1:804189/1‑53 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATCGGt > 1:981222/1‑53 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATCGGt > 1:1278419/1‑53 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATCGGt > 1:1740335/1‑53 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATCGGt > 1:1574987/1‑53 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATCGGt > 1:2357326/1‑53 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATCGGt > 1:2418908/1‑53 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATCGGt > 1:1573429/1‑53 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATCGGt > 1:2571081/1‑53 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATCGGt > 1:1221023/1‑53 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATCGGt > 1:2724142/1‑53 (MQ=255)
cAGTTGTAGGAACGCGTTTCGCCAACAATCACAAAATCAGGGTTCACATCGGt > 1:2823663/1‑53 (MQ=255)
gTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTaa < 1:1033862/50‑1 (MQ=255)
gTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTaa < 1:725887/50‑1 (MQ=255)
gTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTaa < 1:196618/50‑1 (MQ=255)
gTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGAAAc > 1:3322642/1‑59 (MQ=255)
gTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGAAAc > 1:1683188/1‑59 (MQ=255)
gTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTGTa < 1:2615726/69‑1 (MQ=255)
gTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTGTa < 1:770411/69‑1 (MQ=255)
gTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTGTa < 1:1005438/69‑1 (MQ=255)
aaCGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAg > 1:2687047/1‑48 (MQ=255)
aaCGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTg > 1:1267258/1‑62 (MQ=255)
aaCGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTg > 1:2849156/1‑62 (MQ=255)
aaCGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTg > 1:2240478/1‑62 (MQ=255)
aaCGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTg > 1:2480083/1‑62 (MQ=255)
aaCGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTg > 1:3123959/1‑62 (MQ=255)
aaTCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTGTACAGTTCATGAATCAGTGCGcc < 1:20808/69‑1 (MQ=255)
aaTCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTGTACAGTTCATGAATCAGTGCGcc < 1:2406895/69‑1 (MQ=255)
aaTCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTGTACAGTTCATGAATCAGTGCGcc < 1:1338629/69‑1 (MQ=255)
aaTCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTGTACAGTTCATGAATCAGTGCGcc < 1:3290261/69‑1 (MQ=255)
aaTCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTGTACAGTTCATGAATCAGTGCGcc < 1:3260914/69‑1 (MQ=255)
aaTCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTGTACAGTTCATGAATCAGTGCGcc < 1:2666238/69‑1 (MQ=255)
aaTCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTGTACAGTTCATGAATCAGTGCGcc < 1:1115539/69‑1 (MQ=255)
aaTCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTGTACAGTTCATGAATCAGTGCGcc < 1:2714674/69‑1 (MQ=255)
cACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTGTACAGTTCATGAATCAGTGCGCCTTc > 1:515512/1‑69 (MQ=255)
cACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTGTACAGTTCATGAATCAGTGCGCCTTc > 1:1994416/1‑69 (MQ=255)
|
CGAAATAGGCTGCTTTATGCATCATGTCCCAGTTGTAGGAACGCGTTTCGCCAACAATCACGAAATCAGGGTTCACATCGGTAATAGTGAAACCGGCTTTGTACAGTTCATGAATCAGTGCGCCTTC > minE/423228‑423354
|
| 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
