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 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,827,932 |
C→T |
57.1% |
A392V (GCG→GTG) |
mutS → |
methyl‑directed mismatch repair protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,827,932 | 0 | C | T | 57.1%
| 13.5
/ 63.5
| 49 | A392V (GCG→GTG) | mutS | methyl‑directed mismatch repair protein |
| Reads supporting (aligned to +/- strand): ref base C (10/11); new base T (15/13); total (25/24) |
| Fisher's exact test for biased strand distribution p-value = 7.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.74e-01 |
CACGCTTTCCAGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAATCATCGA > minE/1827865‑1827995
|
cACGCTTTCCAGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCt < 1:1822065/71‑1 (MQ=255)
cGCTTTCCAGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGTGCTAc > 1:1328218/1‑71 (MQ=255)
cGCTTTCCAGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGTGCTAc > 1:1468504/1‑71 (MQ=255)
cGCTTTCCAGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGTGCTAc > 1:2558531/1‑71 (MQ=255)
cTTTCCAGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGt > 1:4012965/1‑71 (MQ=255)
ttCCAGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGt > 1:2640361/1‑69 (MQ=255)
cAGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGagaa < 1:1953439/71‑1 (MQ=255)
aGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGagaag < 1:2932183/71‑1 (MQ=255)
aGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGagaag < 1:3782764/71‑1 (MQ=255)
aGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGagaag < 1:319895/71‑1 (MQ=255)
aGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGagaag < 1:4246975/71‑1 (MQ=255)
aGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGagaag < 1:4042574/71‑1 (MQ=255)
cTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCt < 1:580755/56‑1 (MQ=255)
gCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGc > 1:3874437/1‑70 (MQ=255)
ggAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGt > 1:1241609/1‑71 (MQ=255)
ggAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGt > 1:3584804/1‑71 (MQ=255)
gcgtgcgCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGcc > 1:497810/1‑70 (MQ=255)
gtgcgCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAg < 1:3148819/71‑1 (MQ=255)
tgcgCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAg < 1:3177132/70‑1 (MQ=255)
cgcAGTTAGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCt < 1:2296863/70‑1 (MQ=255)
aGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGagaa < 1:685715/46‑1 (MQ=255)
aGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGagaa < 1:2346200/46‑1 (MQ=255)
aGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGagaa < 1:2013691/46‑1 (MQ=255)
ttAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGagaaga > 1:2931519/1‑46 (MQ=255)
aGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATc > 1:2615215/1‑71 (MQ=255)
aGAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATc > 1:2184154/1‑71 (MQ=255)
gAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCt > 1:862073/1‑62 (MQ=255)
gAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTg > 1:2836989/1‑63 (MQ=255)
gAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTg > 1:1040687/1‑63 (MQ=255)
gAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTg > 1:453191/1‑63 (MQ=255)
gAAACTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTg > 1:3997992/1‑63 (MQ=255)
cTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATctgctg > 1:2467489/1‑71 (MQ=255)
cTGTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATctgct > 1:2203720/1‑70 (MQ=255)
gTCGATAGTGCACCGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATctgctg > 1:3524046/1‑69 (MQ=255)
gagaGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGgagc > 1:1817857/4‑70 (MQ=255)
gagaGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGgagc > 1:1822706/4‑70 (MQ=255)
cGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAatcatc < 1:268817/71‑1 (MQ=255)
cGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAatcatc < 1:706385/71‑1 (MQ=255)
cGGTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAatcatc < 1:639204/71‑1 (MQ=255)
gTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAATCATCGa < 1:1052021/71‑1 (MQ=255)
gTACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAATCATCGa < 1:2516060/71‑1 (MQ=255)
gTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAatcat > 1:2717450/1‑68 (MQ=255)
gTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAatcat > 1:2564767/1‑68 (MQ=255)
gTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAatcat > 1:3171226/1‑68 (MQ=255)
tACAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGcgcg < 1:615488/45‑1 (MQ=255)
cAGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGcgcg < 1:2890752/43‑1 (MQ=255)
aGGTGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAATCATCGa < 1:2085140/67‑1 (MQ=255)
ggCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCa < 1:458315/58‑1 (MQ=255)
ggCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCa < 1:847294/58‑1 (MQ=255)
cgcTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAat > 1:2791998/1‑58 (MQ=255)
cgcTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAat > 1:3817463/1‑58 (MQ=255)
cgcTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAat > 1:3632370/1‑58 (MQ=255)
cgcTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAat > 1:3193417/1‑58 (MQ=255)
|
CACGCTTTCCAGCAACTGCCGGAGCTGCGTGCGCAGTTAGAAACTGTCGATAGTGCACCGGTACAGGCGCTACGTGAGAAGATGGGCGAGTTTGCCGAGCTGCGCGATCTGCTGGAGCGAGCAATCATCGA > minE/1827865‑1827995
|
| 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
