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 |
|
A28 F56 I1 R1
|
120 |
79.0 |
2973134 |
95.3% |
2833396 |
126.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
CP006881 |
3,725,237 |
A→G |
intergenic (‑69/‑460) |
U712_19205 ← / → U712_19210 |
Uncharacterized protein ywcI/Minor extracellular protease vpr |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP006881 | 3,725,237 | 0 | A | G | 90.0%
| 83.2
/ ‑5.0
| 31 | intergenic (‑69/‑460) | U712_19205/U712_19210 | Uncharacterized protein ywcI/Minor extracellular protease vpr |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (25/2); minor base C (0/3); total (25/6) |
| Fisher's exact test for biased strand distribution p-value = 2.46e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑TTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTTTAG > CP006881/3725119‑3725363
|
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCCGCCCGCAAGAAAAGACGGCCGAtt > 2:239757/1‑139 (MQ=255)
caAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCCGC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAgttattt > 4:189652/1‑139 (MQ=255)
acactCCACACCCGAAAAGAAACACCCAACCGTTTAAAACAAAACCACCCCACCGCTTTTTTTTGGCCGGCCGC‑CTTTTT‑CGCAGCCGGTTTGCTCCGCCCCCCCCCCCAACAAACCACGGCCGATTTCTTTTCTCGCa < 8:264524/135‑1 (MQ=255)
ccATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCCGTATTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCa > 6:323195/1‑138 (MQ=255)
acCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCCGC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCCAGAAAAGACGGCCGAGTTCTTTTCTGGCAAACGAGCgg > 4:236367/1‑139 (MQ=255)
acCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTATTTTCTCGCAAACTAGCgg > 5:109392/1‑139 (MQ=255)
gTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCCAGAAAAGACGGCCGAGTTGTTTTGGGGCCCACTAGCGGcgcg > 1:162328/1‑136 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCGCAAACTAGCGGctc > 4:159767/1‑137 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTGTCTCGCAAACTAGCGGctc > 7:130844/1‑137 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCCCTTTTCTCAGCCCCAGCCCGCAAGAAAAGACGGCCGAGGTCTTTTCGACCCAACTATCGGcgg > 1:178624/1‑135 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAAc > 1:51115/1‑139 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaaaa > 7:49466/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCAGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTAGCAAACTAGCGGCTATAGCaaaa > 8:249861/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTGTTTGGCAGGCAGC‑CGTTTT‑ATCAGCCCGTTTTCTCCGCCGCAGCCCGCAAGAAAAGACGGCCGATTGAGTTTAGACCAAACTAGCGGCACTAGCAAAAc > 5:130502/1‑139 (MQ=255)
ccAACCGTTACATAAAAAAACACCCCCCCGCTTTTTTTGGCCCGGCAGCTT‑TTTT‑CGCCCCCCTTTTTCCCCCCCGCCGCCCGCAAAAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 1:226258/138‑1 (MQ=255)
aacgttttCATAGAACAACCACCCGCCGCTTCTTTTTGGCGGCCCGC‑CTTTTT‑AGCCGCCCGTTTGCTCAGCCCCCCCCCCCACCAAACGCGGGGCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa < 6:130502/134‑1 (MQ=255)
ccGTTTCAAAGAAAAACACCCGGCGCCTGCTTTTGGGCAGCCCCC‑T‑TTTTAAGCAGCCGTTTTGCACCGCCGCTCCCCCAAACAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 2:37583/138‑1 (MQ=255)
aCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCCAACTAGCGGCTCTAGCAAAACTCATGAct > 6:324444/1‑139 (MQ=255)
cGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAACACTCATGActc > 4:155112/1‑139 (MQ=255)
cGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCGTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGActc > 2:226258/1‑139 (MQ=255)
atatAAAAACATCCCTCCGCTTCTTTTTGGCCGGCCGC‑CTTTTT‑ACCCGCCCTTTTTCTCCGCCGCCCCCCGCAACAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGAt < 1:37736/139‑1 (MQ=255)
aaaCATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGCCGGCCGAGTTGGTTTATCGCCAACTAGCGGCGGGAGCAAAACTCCTGACTCTAAGTTAGGCCg > 1:133170/1‑139 (MQ=255)
cttTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGCCGGCCGATTTCGTTTCTCGCAAACTAGCGGCGCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCtt > 1:225884/1‑139 (MQ=255)
cttTTTGGCAGGCAGC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCCAACTAGCGGCTCTAGCAAAACTCATGACGCGATGTTAGACCGTGGAAAGAGAATTCtt > 1:102616/1‑139 (MQ=255)
ggcagC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGCCCGTGGAACGAGCATTCTTTGTGACAata > 1:143703/1‑139 (MQ=255)
gcagC‑CTTTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAatat > 8:240950/1‑139 (MQ=255)
cagC‑CTTTTT‑CGCAGCCCGTTTTCCCAGCCGCACCCCTCAACAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATg < 3:159767/139‑1 (MQ=255)
gcCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCaa > 8:291403/1‑139 (MQ=255)
cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTTTCACAATATGATTGAAAAAACCaa > 7:69634/1‑138 (MQ=255)
cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTAACAATATGAGTGAAAAAACCaa > 1:101619/1‑138 (MQ=255)
cAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCCAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGCCCGTGGAAAGAGAATTCTTTGTCCCAATATGTGTGAAAAAACCAACTAGgtttttg > 1:280239/1‑137 (MQ=255)
|
TTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑TTTT‑AGCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTTTAG > CP006881/3725119‑3725363
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
