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 |
1,168,168 |
C→A |
26.8% |
G337G (GGC→GGA) |
ynjE → |
predicted thiosulfate sulfur transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,168,168 | 0 | C | A | 26.8%
| 98.1
/ 27.9
| 63 | G337G (GGC→GGA) | ynjE | predicted thiosulfate sulfur transferase |
| Reads supporting (aligned to +/- strand): ref base C (31/15); new base A (8/9); total (39/24) |
| Fisher's exact test for biased strand distribution p-value = 1.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAATTTATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCATATGGAAGATTTTCATAACCCGGAT > minE/1168109‑1168228
|
gAATTTATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGAGCACGTTg > 1:248057/1‑68 (MQ=255)
gAATTTATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGAGCACGTTg > 1:48195/1‑68 (MQ=255)
gAATTTATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGAGCACGTTg > 1:766919/1‑68 (MQ=255)
gAATTTATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGAGCACGTTg > 1:2914988/1‑68 (MQ=255)
gAATTTATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGAGCACGTTg > 1:3121370/1‑68 (MQ=255)
gAATTTATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGAGCACGTTg > 1:2964481/1‑68 (MQ=255)
gAATTTATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGAGCACGTTg > 1:992032/1‑68 (MQ=255)
gAATTTATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGAGCACGTTg > 1:2193413/1‑68 (MQ=255)
tttATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGa < 1:2974167/69‑1 (MQ=255)
tttATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGa < 1:3156853/69‑1 (MQ=255)
tttATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGa < 1:1554845/69‑1 (MQ=255)
tttATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGa < 1:1595493/69‑1 (MQ=255)
ttATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGa < 1:1914999/68‑1 (MQ=255)
tATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGa < 1:2326307/67‑1 (MQ=255)
tACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTgg < 1:2139249/69‑1 (MQ=255)
tACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTgg < 1:194949/69‑1 (MQ=255)
gTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGa > 1:1678319/1‑69 (MQ=255)
tACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGAc > 1:2975780/1‑68 (MQ=255)
tACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACg > 1:433365/1‑69 (MQ=255)
tACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACg > 1:3282161/1‑69 (MQ=255)
tACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACg > 1:1033203/1‑69 (MQ=255)
tACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACg > 1:520185/1‑69 (MQ=255)
tACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACg > 1:2041079/1‑69 (MQ=255)
aGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCa < 1:2318080/68‑1 (MQ=255)
aGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCa < 1:3062652/68‑1 (MQ=255)
aGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGATAGCGACTCGACGCa < 1:2461581/68‑1 (MQ=255)
tataTTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGTGTACACGCTGGTAGCGACTCGACGCa < 1:2185239/65‑1 (MQ=255)
tatTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCatat > 1:1434172/1‑66 (MQ=255)
tatTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCatat > 1:3127838/1‑66 (MQ=255)
tatTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCatat > 1:2859808/1‑66 (MQ=255)
tatTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCatat > 1:933559/1‑66 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCata > 1:557511/1‑63 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCata > 1:2448851/1‑63 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCata > 1:1355710/1‑63 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCata > 1:3123319/1‑63 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCata > 1:975856/1‑63 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCata > 1:2955112/1‑63 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCata > 1:125803/1‑63 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCata > 1:1165098/1‑63 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCata > 1:2270825/1‑63 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCat > 1:1117236/1‑62 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCATATGGaa > 1:3431953/1‑68 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCATATGGAAg > 1:2360073/1‑69 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCATATGGAAg > 1:1143446/1‑69 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCATATGGAAg > 1:1262377/1‑69 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCATATGGAAg > 1:1304222/1‑69 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCATATGGAAg > 1:1780803/1‑69 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCATATGGAAg > 1:2613304/1‑69 (MQ=255)
ttAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCATATGGAAg > 1:2872349/1‑69 (MQ=255)
ttAAACCAAAAGGTGAAATAGCAGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCata > 1:3029810/1‑63 (MQ=255)
atAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCATATGGAAg > 1:3293010/2‑69 (MQ=255)
aaaCCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCATATGGAAGa < 1:3103393/68‑1 (MQ=255)
ccAAAAGGTGAAATAGCCGGAGCACGTTGGGGACACGCAGGTAGCGACTCGACGCATATGGAAGAttt < 1:2447107/68‑1 (MQ=255)
ccAAAAGGTGAAATAGCCGGAGCACGTTGGGGACACGCAGGTAGCGACTCGACGCATATGGAAGAttt < 1:240250/68‑1 (MQ=255)
ccAAAAGGTGAAATAGCCGGAGCACGTTGGGGACACGCAGGTAGCGACTCGACGCATATGGAAGAttt < 1:1459738/68‑1 (MQ=255)
ccAAAAGGTGAAATAGCCGGAGCACGTTGGGGACACGCAGGTAGCGACTCGACGCATATGGAAGAttt < 1:725243/68‑1 (MQ=255)
ccAAAAGGTGAAATAGCCGGAGCACGTTGGGGACACGCAGGTAGCGACTCGACGCATATGGAAGAttt < 1:818206/68‑1 (MQ=255)
ccAAAAGGTGAAATAGCCGGAGCACGTTGGGGACACGCAGGTAGCGACTCGACGCATATGGAAGAttt < 1:833095/68‑1 (MQ=255)
ccAAAAGGTGAAATAGCCGGAGCACGTTGGGGACACGCAGGTAGCGACTCGACGCATATGGAAGAttt < 1:293612/68‑1 (MQ=255)
ccAAAAGGTGAAATAGCCGGAGCACGTTGGGGACACGCAGGTAGCGACTCGACGCATATGGAAGAttt < 1:3013491/68‑1 (MQ=255)
tAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCATATGGAAGATTTTCATAACCCGGAt < 1:721680/68‑1 (MQ=255)
tAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCATATGGAAGATTTTCATAACCCGGAt < 1:141261/68‑1 (MQ=255)
ccGGAGCACGTTGGGGACACGCAGGTAGCGACTCGACGCATATGGAAGAttt < 1:2796902/52‑1 (MQ=255)
|
GAATTTATCGGTACGACCAGCGGTTACAGCTATATTAAACCAAAAGGTGAAATAGCCGGCGCACGTTGGGGACACGCTGGTAGCGACTCGACGCATATGGAAGATTTTCATAACCCGGAT > minE/1168109‑1168228
|
| 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
