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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,348,085 |
G→A |
31.7% |
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 | 31.7%
| 54.3
/ 30.8
| 41 | E89K (GAA→AAA) | npr | phosphohistidinoprotein‑hexose phosphotransferase component of N‑regulated PTS system (Npr) |
| Reads supporting (aligned to +/- strand): ref base G (11/17); new base A (4/9); total (15/26) |
| Fisher's exact test for biased strand distribution p-value = 7.34e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAAGCGACCGGTCCACAGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGAAAATCA > W3110S.gb/3348016‑3348150
|
gaagCGACCGGTCCACAGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTtgatg > 1:1104333/1‑70 (MQ=255)
aCCGGTCCACAGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTa < 1:1600198/71‑1 (MQ=255)
aCCGGTCCACAGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATAAAGATTa < 1:1631409/71‑1 (MQ=255)
aCCGGTCCACAGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATAAAGATTa < 1:1030198/71‑1 (MQ=255)
agaggaagCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACttt < 1:2541099/71‑1 (MQ=255)
gaggaagCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTg < 1:134326/71‑1 (MQ=255)
aggaagCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGa < 1:2379140/71‑1 (MQ=255)
ggaagCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGa > 1:145043/1‑70 (MQ=255)
aagCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATAAAGATTAATCTTCATCACTTTGACAt < 1:2551833/71‑1 (MQ=255)
gCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATAc < 1:1555755/71‑1 (MQ=255)
gCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATAAAGATTAATCTTCATCACTTTGACATAc < 1:138870/71‑1 (MQ=255)
gCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATAAAGATTAATCTTCATCACTTTGACATAc < 1:2883717/71‑1 (MQ=255)
ggCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATAAAGATTAATCTTCATCACTTTGACATACAACTc > 1:2473582/1‑71 (MQ=255)
gTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCa > 1:15112/1‑70 (MQ=255)
gTTATCGCCCTCTTTAATTCTGGTTTTGATAAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCa < 1:1492348/70‑1 (MQ=255)
ttATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTcc < 1:1166730/64‑1 (MQ=255)
ttATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTcc < 1:586639/64‑1 (MQ=255)
aTCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACt > 1:9763/1‑71 (MQ=255)
aTCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCATCAAACt > 1:683101/1‑71 (MQ=255)
tctTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATAc < 1:3607886/49‑1 (MQ=255)
tttAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATAc < 1:2737500/47‑1 (MQ=255)
tttAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATAc < 1:3151691/47‑1 (MQ=255)
tttAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATAc < 1:3695251/47‑1 (MQ=255)
tttAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATAc < 1:499911/47‑1 (MQ=255)
tttAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACt < 1:819948/62‑1 (MQ=255)
tAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTcc > 1:97050/1‑62 (MQ=255)
tAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTcc > 1:3680703/1‑62 (MQ=255)
tAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACaa > 1:2197068/1‑71 (MQ=255)
tAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACaa > 1:2832954/1‑71 (MQ=255)
tAATTCTGGTTTTGATAAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACaa > 1:923695/1‑71 (MQ=255)
aaTTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACaa > 1:866155/1‑70 (MQ=255)
gTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGaaa < 1:3816866/70‑1 (MQ=255)
gTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGaa < 1:171144/69‑1 (MQ=255)
gTTTTGATAAAGATTAATCTTCATCACTTTGACATACaa > 1:1653764/1‑39 (MQ=255)
gTTTTGATAAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGaaa < 1:3816038/70‑1 (MQ=255)
gTTTTGATAAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGaaa < 1:2908969/70‑1 (MQ=255)
ttttGATGAAGATTAATCTTCATCACTTTGACATACa < 1:640360/37‑1 (MQ=255)
ttttGATGAAGATTAATCTTCATCACTTTGACATACa < 1:3567145/37‑1 (MQ=255)
ttttGATAAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGaaa < 1:2779836/69‑1 (MQ=255)
ttGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGAAAAt > 1:3607890/1‑69 (MQ=255)
ttGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGAAAATCa > 1:63072/1‑71 (MQ=255)
ttGATAAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGAAAATCa > 1:2001206/1‑71 (MQ=255)
|
GAAGCGACCGGTCCACAGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGAAAATCA > W3110S.gb/3348016‑3348150
|
| 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
