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 |
2,366,241 |
C→T |
37.6% |
K404K (AAG→AAA) |
pepQ ← |
proline dipeptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,366,241 | 0 | C | T | 37.6%
| 34.9
/ 35.7
| 61 | K404K (AAG→AAA) | pepQ | proline dipeptidase |
| Reads supporting (aligned to +/- strand): ref base C (27/11); new base T (9/14); total (36/25) |
| Fisher's exact test for biased strand distribution p-value = 1.77e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CACGTTGTCTTCGATACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTA > minE/2366175‑2366291
|
cacGTTGTCTTCGATACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGtgctt > 1:2716645/1‑69 (MQ=255)
cacGTTGTCTTCGATACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGtgctt > 1:670789/1‑69 (MQ=255)
cacGTTGTCTTCGATACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGtgctt > 1:181641/1‑69 (MQ=255)
cacGTTGTCTTCGATACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGtgctt > 1:2977741/1‑69 (MQ=255)
cacGTTGTCTTCGATACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGtgctt > 1:483059/1‑69 (MQ=255)
cacGTTGTCTTCGATACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGtgctt > 1:1256546/1‑69 (MQ=255)
cacGTTGTCTTCGATACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGtgctt > 1:698988/1‑69 (MQ=255)
cacGTTGTCTTCGATACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGtgctt > 1:3247073/1‑69 (MQ=255)
ttGTCTTCGATACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTg < 1:390636/69‑1 (MQ=255)
ttGTCTTCGATACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTg < 1:1103245/69‑1 (MQ=255)
tGTCTTCGATACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGa < 1:1295037/69‑1 (MQ=255)
tGTCTTCGATACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGa < 1:1637049/69‑1 (MQ=255)
gTCTTCGATACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGaa > 1:2851634/1‑69 (MQ=255)
aTACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGc < 1:2692934/66‑1 (MQ=255)
aTACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGc < 1:444875/66‑1 (MQ=255)
aTACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGc < 1:2909033/66‑1 (MQ=255)
aTACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGc < 1:1695670/66‑1 (MQ=255)
aTACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGc < 1:1111010/66‑1 (MQ=255)
cGAATGCCGCCGAACGGTTTCAGTGCTTCGATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCa > 1:1514545/1‑69 (MQ=255)
cGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCa > 1:3329310/1‑69 (MQ=255)
cGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCa > 1:3325080/1‑69 (MQ=255)
cGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCa > 1:3048583/1‑69 (MQ=255)
cGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCa > 1:1059001/1‑69 (MQ=255)
cGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCa > 1:3294537/1‑69 (MQ=255)
cGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCa > 1:496873/1‑69 (MQ=255)
cGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCa > 1:2360776/1‑69 (MQ=255)
cGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCa > 1:1124194/1‑69 (MQ=255)
cGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCa > 1:742918/1‑69 (MQ=255)
cGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCa > 1:1551516/1‑69 (MQ=255)
cGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCa > 1:2225720/1‑69 (MQ=255)
cGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCa < 1:1561684/69‑1 (MQ=255)
cGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCa > 1:559714/1‑69 (MQ=255)
cGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCa < 1:1689303/69‑1 (MQ=255)
ccgccgAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCAc > 1:42905/1‑69 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:2310726/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:1418331/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:3063283/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:3048971/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:1989590/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:216225/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:2631599/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:251822/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:2461059/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:2429037/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:2275311/69‑1 (MQ=255)
cTTCAATTTTCTGACAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:2414311/69‑1 (MQ=255)
ttCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:622212/68‑1 (MQ=255)
ttCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:2463305/68‑1 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:67257/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:533071/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:895384/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:2539727/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:3373294/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:2070778/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:2167911/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:2260964/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:1048134/1‑68 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACTGTGCCAGTAGCGATTCGATGAAGTa > 1:1582592/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGt > 1:2037359/1‑56 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:2985627/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:3044562/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:3094823/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:382212/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:1592694/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:725986/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:1382995/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:761662/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:1212274/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:999200/1‑57 (MQ=255)
|
CACGTTGTCTTCGATACGAATGCCGCCGAACGGTTTCAGTGCTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTA > minE/2366175‑2366291
|
| 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
