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 |
|
A0 F0 I1 R1
|
715 |
38.4 |
1606192 |
96.6% |
1551581 |
120.0 |
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%
| 162.9
/ NA
| 39 | 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 . (15/24); total (15/24) |
AGTGTGCGGAAAACCACGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACCTAGTCAATCAGACCTCCGCCCATGTTGCCCACCACACCAAAGAGATACATTACGGTCGACATTGAGGCCGCCAGCACGGCGTGTACCGCAAACAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGTTCGGTAATTCCCACCAG > NC_000913/3862384‑3862646
|
aGTGTGCGGAAAACCACGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCGGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGtt < 1:489387/139‑1 (MQ=255)
gtgCGGAAAACCACGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcac > 2:292715‑M1/1‑136 (MQ=255)
tgCGGAAAACCACGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTTAATCAGACCTCCG‑CCATGTTcacc < 1:784542‑M1/139‑5 (MQ=255)
cGGAAAACCACGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCGcc > 1:270561/1‑128 (MQ=255)
cGGAAAACCACGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCGcc < 2:270561/128‑1 (MQ=255)
aaaaCCACGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAACACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacacc < 1:672768‑M1/139‑10 (MQ=255)
ccACGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaag < 1:83772‑M1/139‑14 (MQ=255)
cGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagaga < 1:217174‑M1/139‑17 (MQ=255)
cGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagaga < 2:642105‑M1/139‑17 (MQ=255)
ggTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcg > 1:715789‑M1/1‑110 (MQ=255)
acaACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgag < 2:296017‑M1/139‑38 (MQ=255)
tGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagc < 1:16295‑M1/139‑47 (MQ=255)
tGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagc < 1:292715‑M1/139‑47 (MQ=255)
aTTTGGTTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggc < 1:510140‑M1/139‑52 (MQ=255)
tCAGCATCATATCCGCGTGGGTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtacc < 2:385862‑M1/139‑59 (MQ=255)
ccGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaac > 1:211513‑M1/1‑69 (MQ=255)
gcgTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacgg > 1:398454‑M1/1‑67 (MQ=255)
gcgTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaa > 1:366544‑M1/1‑67 (MQ=255)
gcgTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaa < 2:366544‑M1/78‑12 (MQ=255)
gTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtg < 2:360521‑M1/139‑75 (MQ=255)
gTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtg < 2:421373‑M1/139‑75 (MQ=255)
gTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtg < 1:629887‑M1/139‑75 (MQ=255)
gTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacac > 1:493903‑M1/1‑65 (MQ=255)
gTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacac < 2:493903‑M1/73‑9 (MQ=255)
tGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtga > 2:307931‑M1/1‑64 (MQ=255)
gTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaa < 2:554455‑M1/139‑78 (MQ=255)
gTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacac < 2:445634‑M1/70‑9 (MQ=255)
gTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacac > 1:445634‑M1/1‑62 (MQ=255)
aCATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacagg < 1:669411‑M1/139‑86 (MQ=255)
cATCGGGATCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacagga > 1:505847‑M1/1‑53 (MQ=255)
tCCAGTTTTGCGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacaggaaggtaaat > 2:278989‑M1/1‑45 (MQ=255)
cGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggcggccagcacggcgtgtaccgcaaacagcaacggtgcaatcaacaggaaggaaaattccagcggtt > 1:684667‑M1/1‑35 (MQ=255)
cGGTAAAACTTAGTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacaggaaggtaaattccagcggtt > 1:268791‑M1/1‑35 (MQ=255)
gTCAATCAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacaggaaggtaaattccagcggttcggtaattccca > 2:638314‑M1/1‑23 (MQ=255)
cAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacaggaaggtaaattccagcggttcggtaattcccaccagca < 2:684667‑M1/139‑123 (MQ=255)
cAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacaggaaggtaaattccagcggttcggtaattcccaccagca < 1:307931‑M1/139‑123 (MQ=255)
cAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacg > 2:348775‑M1/1‑17 (MQ=255)
cAGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacg < 1:348775‑M1/88‑72 (MQ=255)
aGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggtgaaatgaacaggaaggtaaattccagcggttcggtaattcccaccagcat < 2:31498‑M1/139‑124 (MQ=255)
aGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggt > 2:166887‑M1/1‑16 (MQ=255)
aGACCTCCG‑CCATGTTcaccacaccaaagagatacattacggtcgacattgaggccgccagcacggcgtgtaccgcaaacagcaacggt < 1:166887‑M1/89‑74 (MQ=255)
|
AGTGTGCGGAAAACCACGAAGTACAGCAGGGTAAAGCACAACCCAATGGCGATTTGGGTCAGCATCATATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACCTAGTCAATCAGACCTCCGCCCATGTTGCCCACCACACCAAAGAGATACATTACGGTCGACATTGAGGCCGCCAGCACGGCGTGTACCGCAAACAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGTTCGGTAATTCCCACCAG > NC_000913/3862384‑3862646
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
