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 |
|
A15 F58 I0 R3
|
247 |
66.2 |
2815674 |
94.9% |
2672074 |
126.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP006881 |
3,725,237 |
A→G |
100% |
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 | 83.5%
| 65.6
/ ‑2.3
| 28 | 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 (18/5); minor base C (0/5); total (18/10) |
| Fisher's exact test for biased strand distribution p-value = 2.56e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑TT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAAC > CP006881/3725114‑3725353
|
cccAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTTGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGc > 1:181369/1‑139 (MQ=255)
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAtt > 5:88673/1‑139 (MQ=255)
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CGTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCCGCCCGCCAGAAAAGCCGGCCGAtt > 5:197534/1‑139 (MQ=255)
caAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAtttcttt > 7:21704/1‑139 (MQ=255)
aaaGACCATCCACACCCGTAAAGATACAAGCAATCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCTGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAtttctttt > 5:151715/1‑137 (MQ=255)
aGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCg > 4:66011/1‑139 (MQ=255)
aTCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGCCGGCCGATTTCTTTTCTAGCAAAc > 3:122815/1‑139 (MQ=255)
cccGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGc > 8:111613/1‑139 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGctc > 2:221533/1‑137 (MQ=255)
aaGAAACAACAAAACGTTTAATACAAAAACACCCCTCCGCTTCTTTTGGCCAGGCAGC‑CTTT‑TT‑C‑GCCCCCCG‑TTTCTCCCCCCCCCCCCCCAACAACCCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 1:75882/139‑1 (MQ=255)
aGATACACGCAAACGTTTCATAGAAAAACAACCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑CCAGCCCGTTTTCTCAGCCGCAGCCCCCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 7:4564/139‑1 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCCCAAACTATCGGCTCTAGCaaaa > 4:158311/1‑138 (MQ=255)
gCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGCGT‑TT‑TT‑A‑GCAGCCCGGTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCGCAAACTATCGGCTCTAGCAAAACTCAt > 5:279858/1‑139 (MQ=255)
cAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATg < 7:111613/139‑1 (MQ=255)
ccggttCATCTAAAAACATCCCTCCGCTTCTTTTGGCCCGCCCGC‑C‑TTGTT‑C‑GCCCCCCGTTTGCTCCCCCGCAGCCCCAAACAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 4:149587/135‑1 (MQ=255)
agttttAATATAAAAACATCCCTCGGCTTTTTTTTGCCCGGAAGC‑CTTT‑TT‑T‑GCAGCCCGTTTTCTCCCCCCCCCCCCCAACTAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 6:88673/136‑1 (MQ=255)
aCGTTTCATCTAAAACCATCCCTCCGCTTCTTTTTGGCAGGCAGCAT‑TT‑TT‑A‑GCAGCCGGTTTTCTCCGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 7:44408/139‑1 (MQ=255)
aCGTTTAATAGAAAAAAATCCCTCCGCTTCTTTTTGGCTGGCCGC‑C‑TT‑TTAA‑GCCGCCGGTTTTCTCGGCCGCCGCCCGCATGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 6:154530/139‑1 (MQ=255)
aCGTTTAATAAAAAACCATCCACCCTCTTATTTTTAGCAGCCAGCTT‑TT‑TT‑A‑CCAGCCGTTTTACTCCGCCCCCCCCCGCAACAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 5:75731/139‑1 (MQ=255)
aCGTTCCATACAAAACCACCCCACCCCTTATTTTTGGCCGCCCCC‑C‑TT‑TA‑ACGCACCCCGTTTACCCCCCCCCTCCCCCCATCAAACCACGGCCGATTGCTTTTCTCGCAAACAAGCGGCTCTAGCAAAACTCATGAct < 7:189506/139‑1 (MQ=255)
aCGATTCATACAAAAACATCCCACCGCTTCTTTTTGGCCGGCACC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCACCCCGCAAGAAACCACGGCCGATTTCTTTTCTCCCAAACTAGCGGCTCTAGCAAAACTCATGAct < 3:176101/139‑1 (MQ=255)
ttCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCATCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAAATCATGCCTCGAt > 1:204671/1‑139 (MQ=255)
ccGCTTCTTTTTGGCAGGCAGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACGCTATGATAGACCGTGGAAagag > 7:247690/1‑138 (MQ=255)
ggcaggcaGC‑CTTT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTca > 5:237982/1‑138 (MQ=255)
agcCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTGACAATATGAGTGAAAAAAcc > 7:327632/1‑138 (MQ=255)
cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCaa > 6:349442/1‑138 (MQ=255)
cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCaa > 7:5983/1‑138 (MQ=255)
cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCGATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAAc > 3:80354/1‑139 (MQ=255)
|
CCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑TT‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAAC > CP006881/3725114‑3725353
|
| 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
