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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
821,826 |
A→T |
44.4% |
intergenic (‑363/+91) |
ldrA ← / ← ldrC |
toxic polypeptide, small/toxic polypeptide, small |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 821,826 | 0 | A | T | 44.4%
| 14.7
/ 57.9
| 45 | intergenic (‑363/+91) | ldrA/ldrC | toxic polypeptide, small/toxic polypeptide, small |
| Reads supporting (aligned to +/- strand): ref base A (9/16); new base T (8/12); total (17/28) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01 |
GCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCA > minE/821760‑821891
|
gCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGAt < 1:1084642/70‑1 (MQ=255)
gCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGAt < 1:3781259/70‑1 (MQ=255)
cAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATa < 1:2591327/70‑1 (MQ=255)
cAGTCATTTCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATa < 1:5597983/70‑1 (MQ=255)
tCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACaaa < 1:2494345/70‑1 (MQ=255)
aTGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACaaaaa < 1:4944308/70‑1 (MQ=255)
ctctGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCa < 1:1054012/71‑1 (MQ=255)
ctctGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCa < 1:1508998/71‑1 (MQ=255)
ctGGATGAGGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACaaa < 1:1141625/59‑1 (MQ=255)
tGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGAc > 1:34747/1‑55 (MQ=255)
tGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCa < 1:2228891/68‑1 (MQ=255)
ggATGAGGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATGGCCGCAGGc > 1:2077133/1‑70 (MQ=255)
gatgatGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCa > 1:4257911/1‑66 (MQ=255)
gatgatGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAgg < 1:4582793/68‑1 (MQ=255)
gatgatGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAgg < 1:2680119/68‑1 (MQ=255)
gatgatGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGc < 1:3805761/69‑1 (MQ=255)
gatgatGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCt < 1:3346073/70‑1 (MQ=255)
gatgatGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCTg > 1:2476154/1‑71 (MQ=255)
gatgagGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATGGCCGCAGGCt < 1:2602855/70‑1 (MQ=255)
atgaggCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATGGCCGCAGGCTGt < 1:354236/71‑1 (MQ=255)
aggCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACaaa < 1:5235309/50‑1 (MQ=255)
aggCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACaaa < 1:4533099/50‑1 (MQ=255)
tgCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGc < 1:4883770/57‑1 (MQ=255)
gCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATGGCCGCAGGCTGTTAccc < 1:2757126/71‑1 (MQ=255)
gCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATaaa > 1:666443/1‑44 (MQ=255)
cTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCTGTTAcccc > 1:2328042/1‑71 (MQ=255)
cAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATaaa > 1:1169744/1‑39 (MQ=255)
cAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACaaaa > 1:3300256/1‑46 (MQ=255)
cAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCTGTTACCCCTGc < 1:2159948/70‑1 (MQ=255)
cAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCTGTTACCCCTGc < 1:4517571/70‑1 (MQ=255)
cAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCTGTTACCCCTGCg > 1:5073868/1‑71 (MQ=255)
aGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATGGCCGCAGGCTGTTAc > 1:3388011/1‑63 (MQ=255)
gCTCGGGTTGCCAATATTTACTTGTGGAAGAGATaaa < 1:4728784/37‑1 (MQ=255)
tCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATGGCCGCAGGCTGTTACCCCTGCGGCCg > 1:1938616/1‑71 (MQ=255)
ggTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCTGTTACCCCTGCGGCCGGtt > 1:4949673/1‑71 (MQ=255)
gTTGCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATGGCCGCAGGCt < 1:4833049/51‑1 (MQ=255)
gTTGCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATGGCCGCAGGCt < 1:1016865/51‑1 (MQ=255)
tGCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATGGCCGCAGGCTGt > 1:3390871/1‑51 (MQ=255)
gCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATGGCCGCAGGCTGTTACCCCTGCg > 1:3036666/1‑60 (MQ=255)
gCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCgg > 1:263875/1‑71 (MQ=255)
tatTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCa < 1:218579/71‑1 (MQ=255)
tttACTTGTGGAAGTGATAAAGACAAAAATGGCCGCAGGCTGTTACCCCTGCGGCCGGt > 1:4858454/1‑59 (MQ=255)
gtgGAAGTGATAAAGACAAAAATGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCAt > 1:5444806/1‑71 (MQ=255)
gAAGTGATAAAGACAAAAATGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCa < 1:5211129/70‑1 (MQ=255)
aaGTGATAATGACAAAAATGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGTGCGCATATTGCCATc < 1:901305/68‑1 (MQ=14)
agaTAAAGACAAAAATGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCa > 1:253090/1‑66 (MQ=255)
|
GCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCA > minE/821760‑821891
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
