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 |
|
A93 F1 I1 R1
|
15 |
55.4 |
3682408 |
94.4% |
3476193 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
2,749,029 |
G→A |
V292M (GTG→ATG) |
hypE → |
carbamoyl phosphate phosphatase, hydrogenase 3 maturation protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 2,749,029 | 0 | G | A | 97.9%
| 173.9
/ ‑3.1
| 48 | V292M (GTG→ATG) | hypE | carbamoyl phosphate phosphatase, hydrogenase 3 maturation protein |
| Reads supporting (aligned to +/- strand): ref base G (1/0); new base A (26/21); total (27/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.25e-01 |
CAACGCGGCAGAGCAAGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAGTGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTGAAACGAACCCTCGATTTACCACACGCC > REL606/2748956‑2749100
|
caacgcGGCAGAGCAAGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAatg > 1:1491915/1‑76 (MQ=255)
aacgcGGCAGAGCAAGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAatgg > 1:1278274/1‑76 (MQ=255)
aacgcGGCAGAGCAAGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAatgg > 2:224956/1‑76 (MQ=255)
aacgcGGCAGAGCAAGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAatgg > 2:1424833/1‑76 (MQ=255)
gcgGCAGAGCAAGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAAtggtgg > 2:232556/1‑76 (MQ=255)
cgGCAGAGCAAGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGa > 1:1679015/1‑76 (MQ=255)
ggCAGAGCAAGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGaa < 2:988730/76‑1 (MQ=255)
ggCAGAGCAAGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGaa > 2:1713352/1‑76 (MQ=255)
agagCAAGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGt > 1:932958/1‑76 (MQ=255)
gagCAAGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTa > 1:116170/1‑76 (MQ=255)
gagCAAGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTa > 2:1136209/1‑76 (MQ=255)
caGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAgg < 1:210592/75‑1 (MQ=255)
aaGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAgg > 1:1701017/1‑76 (MQ=255)
aaGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAgg > 2:1345377/1‑76 (MQ=255)
aGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGgt < 2:176261/76‑1 (MQ=255)
tGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGgtgt < 1:1401654/76‑1 (MQ=255)
ggCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTcac < 2:1396502/76‑3 (MQ=255)
cAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCt < 2:470005/76‑1 (MQ=255)
cAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCt > 1:1367315/1‑76 (MQ=255)
ggCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCtt < 2:856945/75‑1 (MQ=255)
cGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGc < 2:1545913/76‑1 (MQ=255)
cGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGc > 1:545120/1‑76 (MQ=255)
cGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGc < 2:1179158/76‑1 (MQ=255)
gTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGcc > 1:1346567/1‑76 (MQ=255)
gTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGcc > 1:1451582/1‑76 (MQ=255)
ttACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCg < 1:1713352/76‑1 (MQ=255)
ttACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCg > 2:136215/1‑76 (MQ=255)
aCATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGt > 2:1349832/1‑76 (MQ=255)
aTTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCt > 1:1826425/1‑76 (MQ=255)
aTTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCt > 1:312612/1‑76 (MQ=255)
tCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGt > 1:1021840/1‑76 (MQ=255)
cATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATg < 1:1371756/76‑1 (MQ=255)
cATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATg < 2:1056926/76‑1 (MQ=255)
gtCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTAGTCTTGCCGGCCGGTATgg > 1:50311/2‑76 (MQ=255)
aTCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATgg > 1:764827/1‑76 (MQ=255)
aTCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATgg < 2:1712366/76‑1 (MQ=255)
ccACTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCg < 2:951470/76‑1 (MQ=255)
cTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTgg > 1:973321/1‑75 (MQ=255)
cTGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTGa > 2:1452155/1‑76 (MQ=255)
tGGGGAAAGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTGaa > 1:1732215/1‑76 (MQ=255)
aaaGACGCGGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTGAAACGaa > 2:257765/1‑76 (MQ=255)
aaGACGCGGCGCTGATTGGGGAAAGGGTGGAACGTAAAGGTGTTCGTCTTGCTGGTCTGTATGGCGTGAAACGAAc > 2:918551/1‑76 (MQ=255)
cgcgGCGCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTGAAACGAACCCTc > 2:603302/1‑76 (MQ=255)
ggcgCTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTGAAACGAACCCTCGAt < 1:379524/76‑1 (MQ=255)
gcTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTGAAACGAACCCTCGATTTa < 2:87239/76‑1 (MQ=255)
gcTGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTGAAACGAACCCTCGATTTa < 2:1293057/76‑1 (MQ=255)
tGATTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTGAAACGAACCCTCGATTTAcc < 1:317984/76‑1 (MQ=255)
aTTGGTGAAGTGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTGAAACGAACCCTCGATTTACcac > 1:196307/1‑76 (MQ=255)
aTTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTGAAACGAACCCTCGATTTACcac < 1:1476606/76‑1 (MQ=255)
aTTGGTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTGAAACGAACCCTCGATTTACcac < 1:1575413/76‑1 (MQ=255)
ggTGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTGAAACGAACCCTCGATTTACCACACg < 2:495705/76‑1 (MQ=255)
tGAAATGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTGAAACGAACCCTCGATTTACCACACGcc > 1:55441/1‑76 (MQ=255)
|
CAACGCGGCAGAGCAAGTGCTGGCAGCGTTACATTCCCATCCACTGGGGAAAGACGCGGCGCTGATTGGTGAAGTGGTGGAACGTAAAGGTGTTCGTCTTGCCGGTCTGTATGGCGTGAAACGAACCCTCGATTTACCACACGCC > REL606/2748956‑2749100
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
