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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,348,085 |
G→A |
25.6% |
E89K (GAA→AAA) |
npr → |
phosphohistidinoprotein‑hexose phosphotransferase component of N‑regulated PTS system (Npr) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,348,085 | 0 | G | A | 25.6%
| 78.0
/ 24.5
| 43 | E89K (GAA→AAA) | npr | phosphohistidinoprotein‑hexose phosphotransferase component of N‑regulated PTS system (Npr) |
| Reads supporting (aligned to +/- strand): ref base G (19/13); new base A (6/5); total (25/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCGACCGGTCCACAGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGAAAATCA > W3110S.gb/3348019‑3348150
|
gCGACCGGTCCACAGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTtgatg > 1:1186854/1‑67 (MQ=255)
aCCGGTCCACAGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGAtt > 1:1798478/1‑70 (MQ=255)
aCCGGTCCACAGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTa < 1:1853257/71‑1 (MQ=255)
ccGGGCCACAGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTaa < 1:436406/71‑1 (MQ=255)
tCCACAGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCtt < 1:2234275/71‑1 (MQ=255)
acaGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTtcat < 1:2761567/71‑1 (MQ=255)
agaggaagCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGaa < 1:1678953/52‑1 (MQ=255)
agCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATa < 1:1822254/71‑1 (MQ=255)
gCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGAtt < 1:1783989/49‑1 (MQ=255)
tGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATAc < 1:2175848/67‑1 (MQ=255)
tGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATAAAGATTa < 1:1386574/46‑1 (MQ=255)
ggCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTtc > 1:455986/1‑51 (MQ=255)
cgccgTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGAc > 1:606357/1‑59 (MQ=255)
gTTATCGCCCTCTTTAATTCTGGTTTTGATAAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCa > 1:2279338/1‑70 (MQ=255)
ttATCGCCCTCTTTAATTCTGGTTTTGATAAAGATTa < 1:457721/37‑1 (MQ=255)
ttATCGCCCTCTTTAATTCTGGTTTTGATAAAGATTAATCTTCATCACTTTGACATAc < 1:66175/58‑1 (MQ=255)
ttATCGCCCTCTTTAATTCTGGTTTTGATAAAGATTAATCTTCATCACTTTGACATAc < 1:2237751/58‑1 (MQ=255)
ttATCGCACTCTTTAATTCTGGTTTTGATAAAGATTa < 1:1292200/37‑1 (MQ=37)
aTCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACt > 1:274040/1‑71 (MQ=255)
aTCGCCCTCTTTAATTCTGGTTTTGATAAAGATTAATCTTCATCACTTTGACATACaa > 1:2662207/1‑58 (MQ=255)
tctTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTc < 1:1622907/65‑1 (MQ=255)
ctTTAATTCTGGTTTTGATAAAGATTAATCTTCATCACTTTGACATa > 1:2243322/1‑47 (MQ=255)
tttAATTCTGGTTTTGATGAAGATTAATCTTCATCAc > 1:272126/1‑37 (MQ=255)
tttAATTCTGGTTTTGATGAAGATTAATCTTCATCAc > 1:2129412/1‑37 (MQ=255)
tttAATTCTGGTTTTGATGAAGATTAATCTTCATCACttt < 1:1232403/40‑1 (MQ=255)
tttAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATAc < 1:221756/47‑1 (MQ=255)
tttAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTccc > 1:1644324/1‑65 (MQ=255)
tttAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTccc > 1:2361700/1‑65 (MQ=255)
tttAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGa > 1:1227194/1‑70 (MQ=255)
tttAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGa > 1:2727912/1‑70 (MQ=255)
tAATTCTGGTTTTGATGAAGATTAATCTTCATCACtt > 1:1484642/1‑37 (MQ=255)
tAATTCTGGTTTTGATGAAGATTAATCTTCATCACtt > 1:2675082/1‑37 (MQ=255)
tAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACaa > 1:217902/1‑71 (MQ=255)
tAATTCTGGTTTTGATAAAGATTAATCTTCATCACTTTGa > 1:895923/1‑40 (MQ=255)
tAATTCTGGTTTTGATAAAGATTAATCTTCATCACTTTGa > 1:1273801/1‑40 (MQ=255)
tAATTCTGGTTTTGATAAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACaa > 1:1019832/1‑71 (MQ=255)
cTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTccc > 1:1560461/1‑47 (MQ=255)
cTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTccc > 1:134946/1‑47 (MQ=255)
cTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTccc > 1:1032393/1‑47 (MQ=255)
cTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAg > 1:1192376/1‑70 (MQ=255)
cTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAg < 1:113842/70‑1 (MQ=255)
tGGTTTTGATGAAGATTAATCTTCATCACTTTGACa > 1:1913415/1‑36 (MQ=255)
ttttGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGaa < 1:490878/68‑1 (MQ=255)
tttGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAAc > 1:1488686/1‑49 (MQ=255)
tgatgaAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGAAAATCa < 1:2188290/70‑1 (MQ=255)
|
GCGACCGGTCCACAGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGAAAATCA > W3110S.gb/3348019‑3348150
|
| 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
