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 |
|
A5 F1 I1 R1
|
770 |
51.4 |
2439994 |
93.8% |
2288714 |
110.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,862,518 |
Δ1 bp |
pseudogene (1086/1617 nt) |
glvC ← |
pseudogene, arbutin specific enzyme IIC component of PTS,enzyme, Transport of small molecules: Carbohydrates, organic acids, alcohols, PTS system, arbutin‑like IIB component, PTS system, arbutin‑like IIC component |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,862,516 | 0 | C | . | 100.0%
| 196.5
/ NA
| 47 | pseudogene (1088/1617 nt) | glvC | pseudogene, arbutin specific enzyme IIC component of PTS,enzyme, Transport of small molecules: Carbohydrates, organic acids, alcohols, PTS system, arbutin‑like IIB component, PTS system, arbutin‑like IIC component |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (26/21); total (26/21) |
AGTGTGCGGAAAACCACGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACCTAGTCAATCAGACCTCCGCCCATGTTGCCCACCACACCAAAGAGATACATTACGGTCGACATTGAGGCCGCCAGCACGGCGTGTACCGCAAACAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGTTCGGTAATTCCCACCAGCA > NC_000913/3862384‑3862648
|
aGTGTGCGGAAAACCACGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGtt < 2:947558/139‑1 (MQ=255)
aGTGTGCGGAAAACCACGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGtt < 2:203273/139‑1 (MQ=255)
tgtgCGGAAAACCACGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTca < 2:266829‑M1/139‑3 (MQ=255)
aaaCCACGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacacca > 1:1170565‑M1/1‑129 (MQ=255)
cagGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacgg > 2:1145715‑M1/1‑113 (MQ=255)
tAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgac > 2:326550‑M1/1‑108 (MQ=255)
tAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgac > 1:924451‑M1/1‑108 (MQ=255)
aGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacatt > 2:495771‑M1/1‑105 (MQ=255)
aGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacatt > 1:82187‑M1/1‑105 (MQ=255)
tGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagc < 2:924451‑M1/139‑47 (MQ=255)
catcatATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaa < 1:326550‑M1/139‑63 (MQ=255)
tatCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggt < 2:988181‑M1/99‑28 (MQ=255)
tatCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggt > 1:988181‑M1/1‑72 (MQ=255)
cgTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagc < 1:851022‑M1/112‑47 (MQ=255)
cgTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagc > 2:851022‑M1/1‑66 (MQ=255)
gTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacacca > 2:262408‑M1/1‑65 (MQ=255)
gTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacacca < 1:262408‑M1/75‑11 (MQ=255)
gTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTca > 2:308543‑M1/1‑65 (MQ=255)
gTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTca < 1:308543‑M1/67‑3 (MQ=255)
tGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtga > 2:566246‑M1/1‑64 (MQ=255)
gTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaa < 2:1170565‑M1/139‑78 (MQ=255)
gTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggc < 1:495175‑M1/101‑40 (MQ=255)
gTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggc > 2:495175‑M1/1‑62 (MQ=255)
gTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTca < 2:571603‑M1/64‑3 (MQ=255)
gTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTca > 1:571603‑M1/1‑62 (MQ=255)
cGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacaggaagg > 2:223590‑M1/1‑50 (MQ=255)
ggATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattga > 2:361244‑M1/1‑48 (MQ=255)
ggATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattga < 1:361244‑M1/84‑37 (MQ=255)
tCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTT‑‑‑CACCACACCAAAGAGATACATTa < 2:1177088/68‑1 (MQ=255)
tCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTT‑‑‑CACCACACCAAAGAGATACATTa > 1:1177088/1‑68 (MQ=255)
cAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacaggaaggtaaattc > 2:358354‑M1/1‑43 (MQ=255)
aGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgta < 2:127847‑M1/98‑57 (MQ=255)
aGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgta > 1:127847‑M1/1‑42 (MQ=255)
tgttgcGGTCAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatcaacaggaaggtaaattccag < 1:717302‑M1/137‑100 (MQ=255)
ttGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaa < 1:1103838‑M1/114‑77 (MQ=255)
ttGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaa > 2:1103838‑M1/1‑38 (MQ=255)
tGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacaggaaggtaaattccagcgg > 1:1205978‑M1/1‑37 (MQ=255)
cGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTT‑‑‑CACCACACCaaa < 2:389552/47‑1 (MQ=255)
cGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTT‑‑‑CACCACACCaaa > 1:389552/1‑47 (MQ=255)
cttagTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacaggaaggtaaattccagcggttcggtaatt < 1:358354‑M1/137‑113 (MQ=255)
gTCAATCAGACCTCCG‑CCATGTT‑‑‑CACCACACCAAAGAGAt < 2:112952/40‑1 (MQ=255)
gTCAATCAGACCTCCG‑CCATGTT‑‑‑CACCACACCAAAGAGAt > 1:112952/1‑40 (MQ=255)
aaTCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacaggaaggtaaattccagcggttcggtaattcccacca > 1:982142‑M1/1‑20 (MQ=255)
tCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacaggaaggtaaattccagcggttcggtaattcccaccagc > 2:360305‑M1/1‑18 (MQ=255)
tCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacaggaaggtaaattccagcggttcggtaattcccaccagc > 1:1101686‑M1/1‑18 (MQ=255)
gACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacaggaaggtaaattccagcggttcggtaattcccaccagcatg < 1:223590‑M1/139‑125 (MQ=255)
atctcCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacaggaaggtaaattccagcggttcggtaattcccaccagcatgg > 2:941850‑M1/3‑14 (MQ=255)
|
AGTGTGCGGAAAACCACGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACCTAGTCAATCAGACCTCCGCCCATGTTGCCCACCACACCAAAGAGATACATTACGGTCGACATTGAGGCCGCCAGCACGGCGTGTACCGCAAACAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGTTCGGTAATTCCCACCAGCA > NC_000913/3862384‑3862648
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
