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 |
|
A18 F53 I0 R2
|
221 |
66.0 |
2680176 |
94.9% |
2543487 |
126.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP006881 |
3,725,232 |
A→C |
30.4% |
intergenic (‑64/‑465) |
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 | 3,725,232 | 0 | A | C | 30.4%
| 21.8
/ 5.2
| 29 | intergenic (‑64/‑465) | U712_19205/U712_19210 | Uncharacterized protein ywcI/Minor extracellular protease vpr |
| Reads supporting (aligned to +/- strand): ref base A (15/5); new base C (3/6); total (18/11) |
| Fisher's exact test for biased strand distribution p-value = 4.78e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTTTAGAAG > CP006881/3725113‑3725366
|
aCCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTTA‑GCCGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACgg > 6:74602/1‑139 (MQ=255)
cccAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGc > 7:157968/1‑139 (MQ=255)
ttCATCAAAAAGACCATCCACCCCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGGCCGC‑CGTTTTA‑GCCGCCCGGTTTCTCAGCCGCCGCCCGCAAGC‑AAAGACGGCCGAtt > 6:72144/1‑139 (MQ=255)
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCCGC‑CTTTTTA‑TCAGCCCGTTTTCTCAGCCCCACCCCGCAAGA‑AAAGACGGCCGAtt > 1:245536/1‑139 (MQ=255)
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCCGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGAtt > 8:141976/1‑139 (MQ=255)
caAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGAtttcttt < 3:258373/139‑1 (MQ=255)
caAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTTA‑GCAGACCGTTTTCTCAGCCGCCGCCCCCAAGA‑AAAGACGGCCGAtttcgtt > 5:244875/1‑139 (MQ=255)
caAAAAGAACATCCACCCCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTCGCAGGCAGC‑CGTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGACCGCAAGA‑AAATACGACCGAtatattt > 7:42767/1‑139 (MQ=255)
acCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTAGCgg > 2:135/1‑139 (MQ=255)
ccGAAAAGATACACGCAAACTTTTAATACAAAAACAGCCCTCCGTTTTTTTTTGGCCGGCCTC‑CTTTTTA‑CCCGCCCGTTTTCCCCGCCGCAGCCCCCAACA‑AACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGct < 6:244875/139‑1 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CGTTTTA‑GCAGCCCGTTTTCTCATCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTGTTTTTTAGCCTACTATCggggc > 3:8176/1‑134 (MQ=255)
aGATAAAACCAAACTTTACATACAAAAACTTCCCTCGGTTTTTTTTTGGCTGGCTGCTT‑TTTTA‑GCAGCCCGTTTTCCCCGCCGCAGCCCGAAATA‑AACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 4:293952/139‑1 (MQ=255)
aTACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaa > 3:136817/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTGTTTTTGGCAGGCCGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCCGCCCGCAAGA‑AAAGACGGCCGAGTTCGTTTGTCGCCAACTAGCGGCTCGAGGaaaa > 2:134569/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTTA‑TCAGCCCGTTTTCTCCGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTATCGGCTCTAGCAAAAc > 1:42814/1‑139 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaaaa > 2:176775/1‑138 (MQ=255)
gaaaaCTTTTAATAAAAAAACTCCCCACGGATTCTTTTTGGCCGGCCGCTT‑TTTTC‑CCCGCCGGTTTGCCCCGCCCCCGCCGCAAAGA‑AACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 4:320349/137‑1 (MQ=255)
ccAAACGTGCCATCCAAAACCATCCCTCCGCTGCTTTTTGGCCGGCAGC‑CTTTTTA‑GCCGCCGGTGTTCTCCGCCGCCCCCCCCAACA‑AACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 8:188762/138‑1 (MQ=255)
cAAACGTTTCAAACAAAAACACCCCACCGCGTCTTTTTGGCAGGCACC‑CTTTTTA‑CCCCCCCGGTTTCCCCCCCCCCCCCCCCAACACAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 7:79951/139‑1 (MQ=255)
aaccttttCATATAAAAACCTCGCGCCGTTTTTTTTGGGCCGGCCTCAT‑TTTTC‑CCAGCCCTTTTTCCCCCCCGCCCCCCGAAAAA‑AACCACGGCCGTTTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa < 8:136109/134‑1 (MQ=255)
ccGTTTCATACAAAAACATCCCACCGTTTCTTTTTGGCTGGCAGC‑CTTTTTA‑GCAGCCCGTTTTCTCACCCGCCGCCCGCAATA‑AAAGACGGCCGATTTCTTTTCTCGAAAACTAGCGGCTCTAGCAAAACTCATGAct < 7:21023/138‑1 (MQ=255)
aCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct > 1:279150/1‑139 (MQ=255)
aCGTTTCATACAAAAACACCCCTCCGCTTCTTTTGGGCTGGCCCC‑A‑TTTTACGCCGCCGTTTTTCTCCGCCGCCGCCCCCAAAA‑AACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 7:141976/139‑1 (MQ=255)
gAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCa < 2:223499/100‑1 (MQ=255)
gAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCa > 1:223499/1‑100 (MQ=255)
caccccTCCGCTTCTTTTTGGCCGGCCGC‑CTTTTTA‑GCAGCCGGTTTTCTCCCCCCCAGCCCCCAATA‑AACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTgg < 1:135/136‑1 (MQ=255)
gcagC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAatat > 1:247157/1‑139 (MQ=255)
cccGTTTTCTCAGCCGCAGCCCGCAAGA‑AAAGACGGCCGAGTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACACATGACTATATGATAGACCGTGGAAAGAGAATTCATTGTCACAATAAGAGTGAAAAAACCaa > 5:144876/1‑138 (MQ=255)
ccGCAGCCCGCAAGA‑AAAGACGGCCGATTTCTTTTATCGCAAACTAGCGGCTCTAGCAAAACTCCTGACTCTATGATAGACCGTGGAAAGAGAAATCATTGTCACAATATGAGTGAAAAAACCAACTAGTTTTTAGaac > 2:3393/1‑138 (MQ=255)
|
ACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGA‑AAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTTTAGAAG > CP006881/3725113‑3725366
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
