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 |
|
A12 F28 I1 R1
|
123 |
51.0 |
1731148 |
99.3% |
1719029 |
138.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,972,742 |
A→G |
intergenic (‑51/+94) |
tar ← / ← cheW |
methyl‑accepting chemotaxis protein Tar/chemotaxis protein CheW |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,972,742 | 0 | A | G | 95.7%
| 56.8
/ ‑6.3
| 23 | intergenic (‑51/+94) | tar/cheW | methyl‑accepting chemotaxis protein Tar/chemotaxis protein CheW |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (13/9); total (13/10) |
| Fisher's exact test for biased strand distribution p-value = 4.35e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTGCGAATACCCCCAGCACCATTACCAACAGCGTGACTACGCGGATACGGTTAATCATAAGGCACCTTCCTGAAAACAAGTTGATCTCGTTATCGGCAAGGAGGGGGGAAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTGAGGAAATCGGGAGAATTACGCCACTTCTGACGCCGCGCTATCTAAC > NC_000913/1972634‑1972866
|
gTGCGAATACCCCCAGCACCATTACCAACAGCGTGACTACGCGGATACGGTTAATCATAAGGCCCCTTCCTAAAAACAAGTTGATCTCGTTATCGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGaaa < 2:359956/140‑1 (MQ=255)
aGCACCATTACCAACAGCGTGACTACGCGGATACGGTTAATCATAAGGCACCTTCCTGAAAACAAGTTGATCTCGTTATCGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAAc > 2:551769/1‑140 (MQ=255)
ttACCAACAGCGTGACTACGCGGATACGGTTAATCATAAGGCACCTTCCTGAAAACAAGTTGATCTCGTTATCGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATgc > 1:323938/1‑140 (MQ=255)
cGTGACTACGCGGATACGGTTAATCATAAGGCACCTTCCTGAAAACAAGTTGATCTCGTTATCGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGatcatt > 1:157347/1‑139 (MQ=255)
gTGACTACGCGGATACGGTTAATCATAAGGCACCTTCCTGAAAGCAAGTTGATCTCGTTATCGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCg > 2:770475/1‑140 (MQ=255)
gACTACGGGGATACGGTTAATCAAAAGGCCCCTTCCTGAAAACAAGTTGATCTCGTTATCGGAAGGGGGGGGGGGAACTTTATTGCTGATGCCCCCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCggg < 2:372699/140‑1 (MQ=255)
aCTACGCGGATACGGTTAATCATAAGGCACCTTCCTGAAAACAAGTTGATCTCGTTATCGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGt > 2:674757/1‑140 (MQ=255)
cgGATACGGTTAATCATAAGGCACCTTCCTGAAAACAAGTTGATCTCGTTATCGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCAT‑AGGTTCATTTc > 2:426097/1‑140 (MQ=255)
cGGTTAATCATAAGGCACCTTCCTGAAAACAAGTTGATCTCGTTATCGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTg > 1:658749/1‑140 (MQ=255)
gTTAATCATAAGGCACCTTCCTGAAAACAAGTTGATCTCGTTATCGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTGAg < 1:551769/140‑1 (MQ=255)
gaGGCCCCTTCCTAAAAACAAGTTGATCTCGTTATCGGCAAGGAGGGGGGAAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTGAGGAAATCggg < 1:237650/139‑1 (MQ=255)
cTTCCTGAAAACAAGTTGATCTCGTTATCGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTGAGGAAATCGGGAGAATTa > 2:758067/1‑140 (MQ=255)
cTTCCTGAAAACAAGTTGATCTCGTTATCGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTGAGGAAATCGGGAGAATTa > 1:517786/1‑140 (MQ=255)
cTTCCTGAAAACAAGTTGATCTCGTTATCGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTGAGGAAATCGGGAGAATTa > 2:836645/1‑140 (MQ=255)
aaGATGATCTCGTTATCGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTGAGGAAATCGGGAGAATTACGCCACTTCTGa > 2:788303/1‑140 (MQ=255)
aGTTGATCTCGTTATCGGCAGGGAGGGGGGGAACTTTATTGCTGATGCCCCCCGCCGCGAAATTGAAATAAAAAACCTGATGCGCAGATCATCGGGTTCATTTCAATTGAGGAAATCGGGAGAATTACGCCACTTCTGAc < 1:521697/140‑1 (MQ=255)
gTTGATCTCGTTATCGGCAAGGGGGGGGGGAATTTTATTGCTGATGCCCCCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTGAGGAAATCGGGAGAATTACGCCACTTCTGAcg < 2:517786/140‑1 (MQ=255)
gATCTCGTTATCGGCAAGGGGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTGAGGAAATCGGGAGAATTACGCCACTTCTGAcgccg < 1:770475/140‑1 (MQ=255)
gATCTCGTTATCGGCAAGGAGGGGGGGAATTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTGAGGAAATCGGGAGAATTACGCCACTTCTGAcgccg < 2:658749/140‑1 (MQ=255)
gATCTCGTTATCGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTGAGGAAATCGGGAGAATTACGCCACTTCTGAcgccg < 1:758067/140‑1 (MQ=255)
aaTCTCGTTATCGGAAGGGGGGGGGGGAATTTTATTGCTGATGCCCCCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTGAGGAAATCGGGAGAATTACGCCACTTCTGAcgccg < 1:814717/139‑1 (MQ=255)
ttATCGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTGAGGAAATCGGGAGAATTACGCCACTTCTGACGCCGCGCTATc > 2:234749/1‑140 (MQ=255)
cGGCAAGGAGGGGGGGAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTGAGGAAATCGGGAGAATTACGCCACTTCTGACGCCGCGCTATCTAAc > 2:606745/1‑140 (MQ=255)
|
GTGCGAATACCCCCAGCACCATTACCAACAGCGTGACTACGCGGATACGGTTAATCATAAGGCACCTTCCTGAAAACAAGTTGATCTCGTTATCGGCAAGGAGGGGGGAAACTTTATTGCTGATGCCACCCGCCGCGAAATTGAAATAAAAAACCCGATGCGCAGATCATCGGGTTCATTTCAATTGAGGAAATCGGGAGAATTACGCCACTTCTGACGCCGCGCTATCTAAC > NC_000913/1972634‑1972866
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
