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 |
1,478,347 |
T→G |
34.5% |
N73H (AAT→CAT) |
glpQ ← |
periplasmic glycerophosphodiester phosphodiesterase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,478,347 | 0 | T | G | 34.5%
| 107.9
/ 112.2
| 136 | N73H (AAT→CAT) | glpQ | periplasmic glycerophosphodiester phosphodiesterase |
| Reads supporting (aligned to +/- strand): ref base T (69/20); new base G (26/21); total (95/41) |
| Fisher's exact test for biased strand distribution p-value = 1.04e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 137 total aligned reads displayed.
CCGGGAAACGATCGGCAACATCAGTAACACGATCGAGGTAATGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTGCGCATACGCCATCGCTTTTG > minE/1478284‑1478415
|
ccGGGAAACGATCGGCAACATCAGTAACACGATCGAGGTAATGGTCATGCAGAACAACCAGATTgtcgt > 1:1056507/1‑69 (MQ=255)
ccGGGAAACGATCGGCAACATCAGTAACACGATCGAGGTAATGGTCATGCAGAACAACCAGATTgtcgt > 1:820304/1‑69 (MQ=255)
ccGGGAAACGATCGGCAACATCAGTAACACGATCGAGGTAATGGTCATGCAGAACAACCAGATTgtcgt > 1:3430518/1‑69 (MQ=255)
ccGGGAAACGATCGGCAACATCAGTAACACGATCGAGGTAATGGTCATGCAGAACAACCAGATTgtcgt > 1:3066284/1‑69 (MQ=255)
ccGGGAAACGATCGGCAACATCAGTAACACGATCGAGGTAATGGTCATGCAGAACAACCAGATTgtcgt > 1:2757899/1‑69 (MQ=255)
ccGGGAAACGATCGGCAACATCAGTAACACGATCGAGGTAATGGTCATGCAGAACAACCAGATTgtcgt > 1:2745468/1‑69 (MQ=255)
ccGGGAAACGATCGGCAACATCAGTAACACGATCGAGGTAATGGTCATGCAGAACAACCAGATTgtcgt > 1:2580908/1‑69 (MQ=255)
ccGGGAAACGATCGGCAACATCAGTAACACGATCGAGGTAATGGTCATGCAGAACAACCAGATTgtcgt > 1:2487432/1‑69 (MQ=255)
ccGGGAAACGATCGGCAACATCAGTAACACGATCGAGGTAATGGTCATGCAGAACAACCAGATTgtcgt > 1:2199872/1‑69 (MQ=255)
ccGGGAAACGATCGGCAACATCAGTAACACGATCGAGGTAATGGTCATGCAGAACAACCAGATTgtcgt > 1:2186867/1‑69 (MQ=255)
ccGGGAAACGATCGGCAACATCAGTAACACGATCGAGGTAATGGTCATGCAGAACAACCAGATTgtcgt > 1:1761670/1‑69 (MQ=255)
ccGGGAAACGATCGGCAACATCAGTAACACGATCGAGGTAATGGTCATGCAGAACAACCAGATTgtcgt > 1:1735514/1‑69 (MQ=255)
ccGGGAAACGATCGGCAACATCAGTAACACGATCGAGGTAATGGTCATGCAGAACAACCAGATTgtcgt > 1:1105758/1‑69 (MQ=255)
tgAAACGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCtt < 1:959685/68‑1 (MQ=255)
ggAAACGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCtt < 1:37479/69‑1 (MQ=255)
ggAAACGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCtt < 1:2405065/69‑1 (MQ=255)
ggAAACGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCtt < 1:1138316/69‑1 (MQ=255)
ggAAACGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCtt < 1:2600779/69‑1 (MQ=255)
ggAAACGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCtt < 1:132948/69‑1 (MQ=255)
ggAAACGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCtt < 1:2970539/69‑1 (MQ=255)
ggAAACGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCtt < 1:548923/69‑1 (MQ=255)
ggAAACGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCtt < 1:1411602/69‑1 (MQ=255)
ggAAACGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCtt < 1:1317201/69‑1 (MQ=255)
ggAAACGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCtt < 1:1709032/69‑1 (MQ=255)
gAAACGATCGGCAAGATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCtt < 1:577256/68‑1 (MQ=255)
gAAACGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCtt < 1:2668744/68‑1 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCtttt > 1:2463386/1‑68 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCttt > 1:852224/1‑68 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCttt > 1:1644553/1‑68 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCttt > 1:2298165/1‑68 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCTTTg > 1:1067789/1‑69 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCTTTg > 1:926776/1‑69 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCTTTg > 1:1669331/1‑69 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCTTTg > 1:2856186/1‑69 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCTTTg > 1:2887505/1‑69 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCTTTg > 1:2918570/1‑69 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCTTTg > 1:2130923/1‑69 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCTTTg > 1:2080745/1‑69 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCTTTg > 1:371344/1‑69 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCTTTg > 1:488718/1‑69 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCTTTg > 1:1968120/1‑69 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCTTTg > 1:62362/1‑69 (MQ=255)
aaaCGATCGGCAACATCAGTAACACGATCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCTTTg > 1:683833/1‑69 (MQ=255)
gATCGAGGTAATGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGAt < 1:272239/69‑1 (MQ=255)
gATCGAGGTAATGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGAt < 1:1013334/69‑1 (MQ=255)
gATCGAGGTAATGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGAt < 1:699228/69‑1 (MQ=255)
aTCGAGATAATGGTCATGCAGAACAACCAGATGGTCGTCtt < 1:2000381/41‑1 (MQ=38)
aaTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCa > 1:3175056/1‑57 (MQ=255)
aaTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCa > 1:1356479/1‑57 (MQ=255)
aaTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCa > 1:80220/1‑57 (MQ=255)
aaTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCa > 1:1924303/1‑57 (MQ=255)
aaTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCa > 1:2018431/1‑57 (MQ=255)
aaTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCa > 1:3211643/1‑57 (MQ=255)
aaTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCa > 1:2703161/1‑57 (MQ=255)
aTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGt > 1:2466214/1‑36 (MQ=255)
aTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCtac > 1:2647633/1‑67 (MQ=255)
aTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCt > 1:809368/1‑67 (MQ=255)
aTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTcc > 1:864199/1‑69 (MQ=255)
aTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTcc > 1:2310111/1‑69 (MQ=255)
aTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTcc > 1:1088323/1‑69 (MQ=255)
aTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTcc > 1:1235223/1‑69 (MQ=255)
aTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTcc > 1:1860786/1‑69 (MQ=255)
aTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTcc > 1:1972142/1‑69 (MQ=255)
aTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTcc > 1:515285/1‑69 (MQ=255)
aTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTcc > 1:2365545/1‑69 (MQ=255)
aTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTcc > 1:1217747/1‑69 (MQ=255)
aTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTcc > 1:2938348/1‑69 (MQ=255)
aTGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTc > 1:770787/1‑68 (MQ=255)
gTCATGCATAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:2352694/1‑69 (MQ=255)
gTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:2335117/1‑69 (MQ=255)
gTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:671371/1‑69 (MQ=255)
gTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:2782839/1‑69 (MQ=255)
gTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:2749448/1‑69 (MQ=255)
gTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:2724638/1‑69 (MQ=255)
gTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:1477930/1‑69 (MQ=255)
gTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:206795/1‑69 (MQ=255)
gTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:2229910/1‑69 (MQ=255)
gTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:3309538/1‑69 (MQ=255)
gTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:3218973/1‑69 (MQ=255)
gTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:88099/1‑69 (MQ=255)
gTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:24110/1‑69 (MQ=255)
gTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:1077841/1‑69 (MQ=255)
gTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:1403981/1‑69 (MQ=255)
gTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg > 1:1159675/1‑69 (MQ=255)
taTGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg < 1:2877329/66‑1 (MQ=255)
cATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTgcg < 1:2670756/69‑1 (MQ=255)
gCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTGCGCa < 1:3349535/68‑1 (MQ=255)
cAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg < 1:2806204/63‑1 (MQ=255)
cAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg < 1:2567398/63‑1 (MQ=255)
cAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg < 1:726952/63‑1 (MQ=255)
cAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg < 1:2244794/63‑1 (MQ=255)
cAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg < 1:239464/63‑1 (MQ=255)
cAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg < 1:1728880/63‑1 (MQ=255)
cAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg < 1:397536/63‑1 (MQ=255)
cAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg < 1:2211236/63‑1 (MQ=255)
cAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTGCGCATa > 1:1147279/1‑69 (MQ=255)
cAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTGCGCATa > 1:3050147/1‑69 (MQ=255)
cAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTGCGCATa > 1:2969914/1‑69 (MQ=255)
aGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTg < 1:2848041/62‑1 (MQ=255)
tGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTGCGCATACGCCATCGCTTTTg > 1:1752547/1‑69 (MQ=255)
|
CCGGGAAACGATCGGCAACATCAGTAACACGATCGAGGTAATGGTCATGCAGAACAACCAGATTGTCGTCTTTGGTCATCACCAAATCCTGTTCCAGATAATCCGCTCCCTGCGCATACGCCATCGCTTTTG > minE/1478284‑1478415
|
| 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
