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 |
|
A16 F57 I0 R4
|
226 |
68.5 |
3221688 |
95.0% |
3060603 |
125.7 |
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 | 89.5%
| 43.1
/ ‑2.9
| 18 | 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 (12/4); minor base C (1/1); total (13/5) |
| Fisher's exact test for biased strand distribution p-value = 4.90e-01 |
| 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. |
TTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTT > CP006881/3725119‑3725360
|
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CT‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAtt > 7:180560/1‑139 (MQ=255)
cccGAAAAGAAACCACCACACGTTAAATCCAAACACATCCCTCCCCTGCTTTGTGGCCGCCAGCTT‑‑TTTTA‑GCAGCCCGTTTTCGCAGCCCCAGCCCGCACCAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGc < 2:317527/139‑1 (MQ=255)
agcctAAACATACAAGAAAATGTTAAAAACAAAAACATCCCCCCGCTTCTTTTTGGCTGGCAGC‑CT‑TTTTC‑GCCGCCGTTTTGCTCAGCCGCCGCCCGCAATAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGc < 1:366089/135‑1 (MQ=255)
tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CT‑TTTTA‑GCAGCCCGTTTTATCAGCCGCAGCCCCCAAGAAAAGACCGCCGATTTATTTTATCGCAAACTAGCGGcactt > 5:136696/1‑138 (MQ=255)
ctaTACAAGCAAAGCTTCAATATAACAACACCCCACGGCTTTTTTTTGCCAGCCCGC‑C‑‑TTTTACGCACCCCTTTTTCCCCGCCCCCCCCCCCACCACACGCCGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 4:85857/137‑1 (MQ=255)
aGACACAACCAAACGTTTCATACAAAAACACCCCCCCGCTGCTTTTTGGCAGCCAGC‑CT‑TTTTA‑GCAGCCCGTTTCCCCCGCCCCCCCCCGCAAGAACAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 7:389399/139‑1 (MQ=255)
aCAAGCAAACGTTTCATAGAAACACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CT‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCGTGTCTCGCCAACTAGCGGCGCGAGCAAAAc > 4:157821/1‑139 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CT‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACGAGCGGCTCTAGCAAAAc > 7:388881/1‑139 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CT‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTCCTTTTCTCGCAAACTAGCGGCTCTAGAAAAAc > 3:126720/1‑139 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CT‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCGCAAACAACCGGCTCTAGCaaaa > 5:279602/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CT‑TTTTA‑GCAGCCCGTTTTCTAAGCCGCCGCCCGCAAAAAAAGACGGCCGATTTAGTTTCTCGCAAACTACCCGCACAAGCaaaa > 5:128703/1‑138 (MQ=255)
aaGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCATTTTGGCAGGCAGC‑CT‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCACCCCGCAAGAAAACACGGCCGATTTATATTCACGCAAACAAGCGGCGCTAGCAAAAccg > 2:366089/1‑137 (MQ=255)
aaaaCTTTTCATCTAAAAACATCCCGCGGGTTC‑TTTTGGCACGCAGC‑CCTTTTTC‑GCGGCCGGTTTTCTCACCCGCTCCCCGAAATAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATg < 7:75327/138‑1 (MQ=255)
ggcagC‑CT‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTATCGCAAACTAGCGGCGCGAGCAAAACTCATGCCGGGATGAAAGCCCGTGGAAAGAGAATTGATTTTCACAata > 2:402160/1‑139 (MQ=255)
gcCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGATTGAAAAAACCa > 2:300783/1‑138 (MQ=255)
gcCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCaa > 3:42858/1‑139 (MQ=255)
cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTATCGCTAACTAGCGGCTCTAGCAAAACTCCTGACTCTATGTTAGACCGTGGAAAGAGAATTGTTTTTCACAATATGAGTGTAAAAACCaa > 4:321692/1‑138 (MQ=255)
cAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGtttt > 3:140606/1‑136 (MQ=255)
|
TTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTT > CP006881/3725119‑3725360
|
| 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
