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 |
|
A6 F28 I1 R1
|
116 |
49.4 |
1663006 |
99.2% |
1649701 |
139.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,177,509 |
(C)6→7 |
coding (402/630 nt) |
nudF ← |
ADP‑sugar pyrophosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,177,503 | 1 | . | C | 96.3%
| 91.3
/ ‑2.9
| 27 | coding (408/630 nt) | nudF | ADP‑sugar pyrophosphatase |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base C (20/6); total (20/7) |
| Fisher's exact test for biased strand distribution p-value = 2.59e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.70e-01 |
CCTCTTCTACCCACTGGTATGCCTGTTCCCGGCTTACCACATGAACGCGAATATCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑G‑CCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTGACTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACATCTTCCACACTTTCACCCTCTTCAATCATCCCGGCAACCATCTCCAG > NC_000913/3177364‑3177637
|
ccTCTTCTACCCACTGGTATGCCTGTTCCCGGCTTACCACATGAACGCGAATATCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑g < 1:291614/140‑1 (MQ=255)
cACTGGTATGCCTGTTCCCGGCTTACCACATGAACGCGAATATCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑G‑cccccccgggc < 2:421074/140‑6 (MQ=255)
tATGCCTGTTCCCGGCTTACCACATGAACGCGAATATCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCa < 2:70866/140‑1 (MQ=255)
tGCCTGTTCCCGGCTTACCACATGAACGCGAATATCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAgg < 1:169175/140‑1 (MQ=255)
cTGTTCCCGGCTTACCACATGAACGCGAATATCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGaaa > 1:688013/1‑140 (MQ=255)
ttCCCGGCTTACCACATGAACGCGAATATCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACtt > 1:97247/1‑140 (MQ=255)
tCCCGGCTTACCACATGAACGCGAATATCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTa > 1:140674/1‑140 (MQ=255)
tCCCGGCTTACCACATGAACGCGAATATCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTa > 1:700133/1‑140 (MQ=255)
ggCTTACCACATGAACGCGAATATCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAacac > 1:160108/1‑140 (MQ=255)
gAACGCGAATATCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCg > 2:319074/1‑140 (MQ=255)
cgcgAATATCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGttt > 2:466441/1‑140 (MQ=255)
cgAATATCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGtt > 1:632593/1‑137 (MQ=255)
cgAATATCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGtt < 2:632593/137‑1 (MQ=255)
atatCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTg > 1:772245/1‑136 (MQ=255)
atatCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTg < 2:608288/136‑1 (MQ=255)
atatCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTg > 1:608288/1‑136 (MQ=255)
atatCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTg < 2:772245/136‑1 (MQ=255)
ttttCACCACCCAGACCGTAAATCCCGCTGGGGGTGGTGGCGCCCCCTCCCCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACCCCGTTTTGGTCCGTTTGACTATCAGTCCCg < 2:688013/140‑1 (MQ=255)
ccGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTGACTATCAGTCCCGCCTCTTCAATCGCTTCGCGACggg > 2:258481/1‑140 (MQ=255)
cGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTGACTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGc > 1:359146/1‑140 (MQ=255)
ttGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTGACTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAAc > 1:315721/1‑140 (MQ=255)
ttGCGGTCGTGGCGCCCCCTCCCCCCACCATAATTGACGAACGCTCCCTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACCCCGGTTTGGTCCGTTTGACTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAAc < 2:315721/140‑1 (MQ=255)
tGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTGACTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACa > 2:204131/1‑140 (MQ=255)
ccccgcTTCCCCCACAATAATTGCCGAACGCTCTTGGGTCC‑CCCCCCGGGCTT‑GCAAGGAAACTAACCCCCGTTTTGGCCCGTTTGCCTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACATCTTCCACACtt < 2:359146/135‑1 (MQ=255)
cACTCCCCCCCCCATAATTGACGAACGCTCACTGGTCC‑CCCCCCGGGCTT‑GCCAGAAAACTTAACCCCGGTTTGGTCCGTTTGACTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACATCTTCCACACTTTCa < 2:160108/140‑1 (MQ=255)
agctcccccccccATAATTGACGACCGCTCACTGGTCC‑CCCCCCGGGTTT‑GCCAGAAACCTTAACACCGGTTTGGTCCGTTTGACTACCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACATCTTCCACACTTTCa < 2:712827/133‑1 (MQ=255)
cctcccccccccAAAATTGACGACCGCTCCCTGGTCC‑CCCCCCGGGCTT‑GCCAGAAAACTTACCACCGGTTGGGTCGTTTTGACTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACATCTTCCACACTTTCAc < 2:140674/134‑1 (MQ=255)
aTAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTGACTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACATCTTCCACACTTTCACCCTCTTCAatct > 1:712827/1‑139 (MQ=255)
aTAATTGACGAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTGACTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACATCTTCCACACTTTCACCCTCTTCAatca > 1:388493/1‑140 (MQ=255)
tAATTAACAAACGCTCACTGGT‑C‑CCCCCCCGGCTTCGCCAGAAAACTTACCACCGTTTTGTCCCGTTTGGCTATCATTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACATCTTCCACACTTTCACCCTCTTCAatcat < 2:780482/140‑1 (MQ=255)
cGACCGCTCACGGGTCC‑CCCCCCGGGCTT‑GCCAGGAAACTTACCCCCGGTTTGGTCCGTTTGCCTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACATCTTCCACACTTTCACCCTCTTCAATCATCCCGGCa < 2:97247/140‑1 (MQ=255)
gAACGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTGACTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACATCTTCCACACTTTCACCCTCTTCAATCATCCCGGCaa > 1:470813/1‑140 (MQ=255)
cGCTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTGACTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACATCTTCCACACTTTCACCCTCTTCAATCATCCCGGCAACCa > 2:644765/1‑140 (MQ=255)
cccgaCTGGC‑G‑CCCCCCCGGTTTGGCCAGGAAACTTAACGCCGTTTTGGTCCGTTTGACTACCTGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACATCTTCCACACTTTCACCCTCTTCAATCATCCCGGCAACCAt < 2:700133/136‑1 (MQ=255)
cTCACTGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTGACTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACATCTTCCACACTTTCACCCTCTTCAATCATCCCGGCAACCAtc > 1:679574/1‑140 (MQ=255)
tGGT‑GCCCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTGACTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACATCTTCCACACTTTCACCCTCTTCAATCATCCCGGCAACCATCTCCAg > 2:703421/1‑140 (MQ=255)
|
CCTCTTCTACCCACTGGTATGCCTGTTCCCGGCTTACCACATGAACGCGAATATCTTCGTTTTCATCAGCCAGACCGTGAATACCGCTTGCGGTCGTGGCGTCCACTTCGCCCACCATAATTGACGAACGCTCACTGGT‑G‑CCCCCCGGGCTT‑GCCAGGAAACTTAACACCGGTTTGGTCCGTTTGACTATCAGTCCCGCCTCTTCAATCGCTTCGCGACGGGCAACATCTTCCACACTTTCACCCTCTTCAATCATCCCGGCAACCATCTCCAG > NC_000913/3177364‑3177637
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
