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 I2 R1
|
758 |
59.3 |
2864096 |
93.9% |
2689386 |
105.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,728,118 |
(C)8→9 |
coding (1254/1455 nt) |
xylB ← |
xylulokinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,728,110 | 1 | . | C | 95.0%
| 134.0
/ 0.0
| 40 | coding (1262/1455 nt) | xylB | xylulokinase |
| Reads supporting (aligned to +/- strand): ref base . (0/2); new base C (17/21); total (17/23) |
| Fisher's exact test for biased strand distribution p-value = 4.99e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.36e-01 |
CTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCG > NC_000913/3727974‑3728223
|
cTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑‑cc < 1:654913/139‑1 (MQ=255)
tAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACgg > 2:887128/1‑139 (MQ=255)
tCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑‑CCCCCCCCGTACGGTAATCGAgctgct < 1:439182/139‑1 (MQ=255)
cTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGATCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAAC‑‑CCCCCCCCGTACGGTAATCGAgctgct < 1:1051200/139‑1 (MQ=255)
cTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAgctgct > 2:24954/1‑139 (MQ=255)
cTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAgctgct < 2:923621/139‑1 (MQ=255)
cTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAgctgct < 1:485654/139‑1 (MQ=255)
ggTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑‑cccccccccg > 1:962670/1‑117 (MQ=255)
ggTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑‑cccccccccg < 2:962670/119‑3 (MQ=255)
tGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATCCCCCCCCCCCTACGGTAATCGAGCTGCCGACCGcc > 2:140969/1‑138 (MQ=255)
cTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATc > 1:475963/1‑139 (MQ=255)
tGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATcc > 1:604164/1‑139 (MQ=255)
gTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGCCCGCTGATATCCGCCAGCATCt < 2:249745/139‑1 (MQ=255)
tAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGA‑TCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGa < 1:445860/139‑1 (MQ=255)
aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGa < 2:657216/139‑1 (MQ=255)
aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑‑cccccccccgtac > 1:338689/1‑93 (MQ=255)
aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑‑cccccccccgtac < 2:338689/98‑6 (MQ=255)
tGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGc < 1:182854/139‑1 (MQ=255)
tGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGc < 2:971751/139‑1 (MQ=255)
cGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATc > 1:989293/1‑100 (MQ=255)
cGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATc < 2:989293/100‑1 (MQ=255)
cGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAgctg > 2:1113701/1‑106 (MQ=255)
cGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAgctg < 1:1113701/106‑1 (MQ=255)
cGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGATCGCTGATATCCGCCAGCATCTGACGCCa < 1:887128/139‑1 (MQ=255)
aaTGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTAcg < 1:24954/139‑1 (MQ=255)
gCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGcgccc > 2:917852/1‑139 (MQ=255)
ttCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAg > 1:148122/1‑105 (MQ=255)
ttCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAg < 2:148122/105‑1 (MQ=255)
tGGATTCGCTGCGATCTGCGCCAGCCTTGCTGCGGCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAAt < 1:917852/139‑1 (MQ=255)
tGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAAt < 2:604164/139‑1 (MQ=255)
tGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAAt < 2:475963/139‑1 (MQ=255)
gccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGa < 1:632104/100‑1 (MQ=255)
gccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGa > 2:632104/1‑100 (MQ=255)
gccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCa < 1:951302/105‑1 (MQ=255)
gccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCa > 2:951302/1‑105 (MQ=255)
gccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCCGTACTCCCTACCCGCCCCGCCCCCAATCAACGTa > 1:339433/1‑139 (MQ=255)
ccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGAc > 2:617995/1‑76 (MQ=255)
ccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGAc < 1:617995/76‑1 (MQ=255)
cTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTg < 1:1280576/139‑1 (MQ=255)
gcgcCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGATCTGCTGACCGCTGATATCCGCCAGCACCTGACGCCAGTACCCACTACCCGCCCCGCCCCCCAACAACGTAAAACTTTCCg > 2:1280576/1‑139 (MQ=255)
ccTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGc < 2:1300922/86‑1 (MQ=255)
ccTTGCTGCGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGc > 1:1300922/1‑86 (MQ=255)
ccTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑‑cccccccccgta > 2:377627/1‑37 (MQ=255)
ccTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑‑cccccccccgta < 1:377627/41‑5 (MQ=255)
gctgcGCCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCg > 1:593526/1‑139 (MQ=255)
gcCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGccccc > 1:236479/1‑103 (MQ=255)
gcCCAGTGCTGGCCCCAC‑ATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGccccc < 2:236479/103‑1 (MQ=255)
|
CTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCAC‑AT‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCG > NC_000913/3727974‑3728223
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
