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 F1 I1 R1
|
750 |
51.0 |
2595496 |
93.6% |
2429384 |
106.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,609,336 |
(C)7→8 |
intergenic (+13/‑78) |
yjjG → / → prfC |
dUMP phosphatase/peptide chain release factor RF‑3 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,609,329 | 1 | . | C | 95.7%
| 74.8
/ ‑3.3
| 23 | intergenic (+6/‑85) | yjjG/prfC | dUMP phosphatase/peptide chain release factor RF‑3 |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base C (12/10); total (12/11) |
| Fisher's exact test for biased strand distribution p-value = 4.78e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTCGGTGGCATCAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACTT > NC_000913/4609192‑4609459
|
ctcGGTGGCATCAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑c < 1:480833/139‑1 (MQ=255)
tGGCATCAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑cccccc < 2:804715/139‑1 (MQ=255)
cGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCTCCCCCCC‑CGTTGATg < 1:298466/139‑1 (MQ=255)
gCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAg > 1:1226661/1‑139 (MQ=255)
tCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑cc > 1:985402/1‑90 (MQ=255)
tCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCCCCTGTGTAAACACTGATTGCCT‑cc < 2:985402/90‑1 (MQ=255)
aGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑cccccc‑ccgttg > 1:498897/1‑90 (MQ=255)
aGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑cccccc‑ccgttg < 2:498897/95‑6 (MQ=255)
gCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAgcgcggcgc > 2:114132/1‑139 (MQ=255)
tCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑cccc < 1:586111/72‑1 (MQ=255)
tCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑cccc > 2:586111/1‑72 (MQ=255)
gACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCt < 2:749759/121‑1 (MQ=255)
gACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCt > 1:749759/1‑121 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGa > 2:467217/1‑139 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑cccccc‑ccgttg > 1:1125717/1‑57 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑cccccc‑ccgttg < 2:1125717/62‑6 (MQ=255)
ttcttcGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAgcgcggcg > 2:634431/1‑105 (MQ=255)
ttcttcGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAgcgcggcg < 1:634431/105‑1 (MQ=255)
tcttcGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑CCCCCCACGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACg < 2:591110/139‑1 (MQ=255)
tcGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCg < 2:614797/83‑1 (MQ=255)
tcGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCg > 1:614797/1‑83 (MQ=255)
gCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑cccccc‑ccgttg > 1:1230653/1‑47 (MQ=255)
gCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑cccccc‑ccgttg < 2:1230653/52‑6 (MQ=255)
ggAGCAGCTCCTGTGTAAACACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCa < 1:114132/139‑1 (MQ=255)
agcagcTCCTGTGTAAACACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAag > 2:1121827/1‑139 (MQ=255)
agcagcTCCTGTGTAAACACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAag < 1:1121827/139‑1 (MQ=255)
cTCCTGTGTAAACACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAagaaga > 2:1167751/1‑102 (MQ=255)
cTCCTGTGTAAACACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAagaaga < 1:1167751/102‑1 (MQ=255)
aaCACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGaa > 2:335563/1‑134 (MQ=255)
aaCACTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGaa < 1:335563/134‑1 (MQ=255)
acacTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGcgccg < 1:63700/139‑1 (MQ=255)
acacTGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGcgccg > 1:613924/1‑139 (MQ=255)
tGATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGTGAAGCGCCGCACt > 1:1236449/1‑139 (MQ=255)
gATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACtt > 2:697604/1‑139 (MQ=255)
gATTGCCTCCCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACtt < 2:805667/139‑1 (MQ=255)
|
CTCGGTGGCATCAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTGCCT‑CCCCCC‑CGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACTT > NC_000913/4609192‑4609459
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
