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 |
|
A1 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
531,446 |
C→T |
62.7% |
intergenic (‑1/‑229) |
ybbS ← / → allA |
transcriptional activator of the allD operon/ureidoglycolate hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 531,446 | 0 | C | T | 62.7%
| 37.9
/ 54.3
| 51 | intergenic (‑1/‑229) | ybbS/allA | transcriptional activator of the allD operon/ureidoglycolate hydrolase |
| Reads supporting (aligned to +/- strand): ref base C (10/9); new base T (21/11); total (31/20) |
| Fisher's exact test for biased strand distribution p-value = 3.89e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.11e-01 |
TTTGAAAAACTTCCTGTTTCAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTATTTTTA > W3110S.gb/531384‑531514
|
tttGAAAAACTTCCTGTTTCAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCAgg < 1:1452909/69‑1 (MQ=255)
aCCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGtt > 1:2774060/1‑69 (MQ=255)
aCCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGtt > 1:1308277/1‑69 (MQ=255)
gCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTc > 1:3395906/1‑39 (MQ=255)
gCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTc > 1:2640501/1‑39 (MQ=255)
gCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTc > 1:2757911/1‑39 (MQ=255)
gCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTc > 1:3542192/1‑39 (MQ=255)
aaTGAAAGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTg < 1:586106/69‑1 (MQ=255)
gAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGAtt > 1:2841748/1‑69 (MQ=255)
gAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGAtt > 1:2200148/1‑69 (MQ=255)
gAAAGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCtttt > 1:3225897/1‑48 (MQ=255)
aaaGTCCGCAAGGTTTCTGGATCGAACATTTTCAGGTa < 1:403367/38‑1 (MQ=255)
aaaGTCCGCAAGGTTTCTGGATCGAACATTTTCAGGTa < 1:1968583/38‑1 (MQ=255)
aaaGTCCGCAAGGTTTCTGGATCGAACATTTTCAGGTa < 1:575408/38‑1 (MQ=255)
aaaGTCCGCAAGGTTTCTGGATCGAACATTTTCAGGTa < 1:598080/38‑1 (MQ=255)
aaaGTCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGAttt > 1:1452267/1‑69 (MQ=255)
aaaGTCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGAttt > 1:193745/1‑69 (MQ=255)
aaaGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGt > 1:1113591/1‑64 (MQ=255)
aaaGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGt > 1:3387789/1‑64 (MQ=255)
aGTCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGAtttt > 1:2150342/1‑68 (MQ=255)
aGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGAtttt < 1:3170467/68‑1 (MQ=255)
tCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCtt > 1:66270/1‑69 (MQ=255)
tCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCtt > 1:1841714/1‑69 (MQ=255)
tCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCtt > 1:342578/1‑69 (MQ=255)
tCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCtt > 1:2016518/1‑69 (MQ=255)
tCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCt > 1:130660/1‑68 (MQ=255)
tCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATACGCAAGTTGCGTGATTTTCtt > 1:2506928/1‑69 (MQ=255)
tCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCtt < 1:2657077/69‑1 (MQ=255)
tCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCtt < 1:748779/69‑1 (MQ=255)
tCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCtt < 1:1570314/69‑1 (MQ=255)
ccGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCtt < 1:2442170/68‑1 (MQ=255)
ccGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTa < 1:3321938/69‑1 (MQ=255)
tttCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCt > 1:2692193/1‑59 (MQ=255)
tttCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGa > 1:374347/1‑69 (MQ=255)
tttCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGa > 1:2755203/1‑69 (MQ=255)
ttCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGa > 1:3678457/1‑68 (MQ=255)
ttCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGa > 1:262497/1‑68 (MQ=255)
ttCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGa > 1:964025/1‑68 (MQ=255)
ttCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGa > 1:1241859/1‑68 (MQ=255)
ttCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGa > 1:2961711/1‑68 (MQ=255)
ttCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGa > 1:2914718/1‑68 (MQ=255)
tCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGAtt > 1:1160647/1‑69 (MQ=255)
tGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGa < 1:3221539/49‑1 (MQ=255)
tCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAg > 1:3295529/1‑69 (MQ=255)
tCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAg < 1:3344440/69‑1 (MQ=255)
tCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAg < 1:3134796/69‑1 (MQ=255)
cGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGt < 1:407332/69‑1 (MQ=255)
aaCATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCtt < 1:1422179/49‑1 (MQ=255)
aCATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTAt < 1:2485568/68‑1 (MQ=255)
aCATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTAt < 1:2489940/68‑1 (MQ=255)
cATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTAt < 1:2006224/67‑1 (MQ=255)
cTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTATTTTTa > 1:1036144/1‑69 (MQ=255)
|
TTTGAAAAACTTCCTGTTTCAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTATTTTTA > W3110S.gb/531384‑531514
|
| 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
