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 |
|
A13 F121 I0 R1
|
43 |
32.8 |
695000 |
96.9% |
673455 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
1,233,332 |
C→A |
57.9% |
P413T (CCT→ACT) |
USA300HOU_1157 → |
non‑specific serine/threonine protein kinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 1,233,332 | 0 | C | A | 57.9%
| 2.1
/ 29.2
| 26 | P413T (CCT→ACT) | USA300HOU_1157 | non‑specific serine/threonine protein kinase |
| Reads supporting (aligned to +/- strand): ref base C (3/8); new base A (8/7); total (11/15) |
| Fisher's exact test for biased strand distribution p-value = 2.46e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.65e-01 |
ATGGCAATGTTTGGTAATAAATACGAAGAGACACCTGATGTAATCGGGAAATCTGTAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATCCTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGC > CP000730/1233200‑1233468
|
atggcaatgTTTGGTAATAAATACGAAGAGACACCTGATGTAAGCGGGAAATCTGTAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGGAAAATTTCTAGAAGTTATAGTGATAAATATACTGAAAAt < 2:311354/141‑1 (MQ=255)
gcaatgTTTGGTAATAAATACGAAGAGACACCTGATGTAATCGGGAAATCTGTAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATCCTGAAAATGaa > 1:58574/1‑141 (MQ=255)
tGGTAATAAATACGAAGAGACACCTGATGTAATCGGGAAATCTGTAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGTTAAATATACTGAAAATGAAATTATTaa < 2:73509/141‑1 (MQ=255)
gTAATAAATACGAAGAGACACCTGATGTAATCGGGAAATCTGTAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATCCTGAAAATGAAATTATTAAGa < 1:278112/141‑1 (MQ=255)
taataaATACGAAGAGACACCTGATGTAATCGGGAAATCTGTAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATCCTGAAAATGAAATTATTAAGAc > 1:11711/1‑141 (MQ=255)
aaataCGAAGAGACACCTGATGTAATCGGGAAATCTGTAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATACTGAAAATGAAATTATTAAGACAACt > 1:145573/1‑141 (MQ=255)
aaGACAAACCTGATGTAATCGGGAAATCTGTAAAAGAAGAAGAGCAAATATTCAATAAAAACAACCTGAAATCGGGTAAAATTTCTAGAAGTTATAGTGATAAATATCCTGAAAATGAAATTATTAAGACAACTCCTAATa < 2:281964/141‑1 (MQ=255)
gaCACCTGATGTAATCGGGAAATCTGTAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATACTGAAAATGAAATTATTAAGACAACTCCTAATAATgg < 1:248515/141‑1 (MQ=255)
cacCTGATGTAATCGGGAAATCTGTAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATACTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTg > 1:152346/1‑141 (MQ=255)
aaTCGGGAAATCTGTAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATACTGAAAATGAAATTATTCAGACAACTCCTAATACTGGTGAACGTGTTGa > 2:54878/1‑141 (MQ=255)
tCGGGAAATCTGTAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATACTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAAc > 2:143802/1‑141 (MQ=255)
gAAATCTGTAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATCCTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAACgtgg < 1:168704/141‑1 (MQ=255)
aTCTGTAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATCCTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAACGTGGTGa < 2:11711/141‑1 (MQ=255)
tCTGTAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATACTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAACGTGATGAc > 2:65431/1‑141 (MQ=255)
tAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATCCTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAACGTGGTGACAgtg > 1:336709/1‑141 (MQ=255)
aaaGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATACTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAACGTGGTGACAGTGtt < 1:185404/141‑1 (MQ=255)
aaagCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATCCTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAACGTGGTGACAGTGTTGAt < 2:99328/140‑1 (MQ=255)
agagCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAAGATACTGAAAATGAAATTATTAAGACAACTCATAATACTGGTGAACGTGTTGAACGTGTTAGAACTGTTGAtgttgt > 2:201970/1‑141 (MQ=255)
acaacaatacAATAAAAACAACCTGAGATTGGGTAAAATTTCTAGAACTAAAAGTGATAAATATCCGGAAAATGAAATTATTAATACAACTCCTAATACTGGTGAACCTGTTGAACGTGGTGACAGTGTTGATGTTGTtat < 2:24439/132‑1 (MQ=255)
ttCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATACTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAg < 1:247003/141‑1 (MQ=255)
aTAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATACTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGcc < 1:318251/141‑1 (MQ=255)
aTTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATACTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAAt < 2:189828/141‑1 (MQ=255)
gTAAAATTTCTAGAAGTTATAGTGATAAATATCCTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCaa < 2:58574/141‑1 (MQ=255)
aaTTTCTAGAAGTTATAGTGATAAATATCCTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGt < 2:322802/141‑1 (MQ=255)
ttATAGTGATAAATATACTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTAcc > 2:129319/1‑141 (MQ=255)
atatACTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGc > 1:260205/1‑141 (MQ=255)
|
ATGGCAATGTTTGGTAATAAATACGAAGAGACACCTGATGTAATCGGGAAATCTGTAAAAGAAGCAGAGCAAATATTCAATAAAAACAACCTGAAATTGGGTAAAATTTCTAGAAGTTATAGTGATAAATATCCTGAAAATGAAATTATTAAGACAACTCCTAATACTGGTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGC > CP000730/1233200‑1233468
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
