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 |
|
A2 F107 I0 R1
|
44 |
107.5 |
1858198 |
97.6% |
1813601 |
268.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
3,769,857 |
T→A |
33.3% |
intergenic (+74/‑91) |
yibV → / → yibU |
pseudogene, putative cryptic Rhs immunity protein/pseudogene, H repeat‑associated protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,769,857 | 0 | T | A | 33.3%
| 9.6
/ 8.5
| 12 | intergenic (+74/‑91) | yibV/yibU | pseudogene, putative cryptic Rhs immunity protein/pseudogene, H repeat‑associated protein |
| Reads supporting (aligned to +/- strand): ref base T (6/2); new base A (2/2); total (8/4) |
| Fisher's exact test for biased strand distribution p-value = 5.47e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.20e-01 |
TATCTGAAAAATCTAAATCCACTCCAACTTGCCGCTGATTGCATTGAAACAGTAAATAAAATAAAAGATAAGAATAAAAAAAATCATTGATATAAATTCAGTTAATATTTGTAGTGATGATAAAAATATAAAATTGAGAGTTAATAGTACTATTATGGCCATTGATGATTCTATAAAGTGCATCGATGAATGATAACTTAATTTTATTTAAAAATATATTAATAACTCACTCTCCAGGAGTTTTTTTAACTTAGTTTTATAATGAATACGATAATTAAAAGTGAAGAAGAAAATAGTTGTATACATATATTCCATGACCCTACATTGTGATCTATAGATTAAATATTTTTTAAATGTGACTGTCATCCTTCAGATAATAAAGCCATCATCGCAATAGATGGAAAAGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGCAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACA > NC_000913/3769591‑3770143
|
tatCTGAAAAATCTAAATCCACTCCAACTTGCCGCTGATTGCATTGAAACAGTAAATAAAATAAAAGATAAGAATAAAAAAAATCATTGATATAAATTCAGTTAATATTTGTAGTGATGATAAAAATATAAAATTGAGAGTTAATAGTACTATTATGGCCATTGATGATTCTATAAAGTGCATCGATGAATGATAACTTAATTTTATTTAAAAATATATTAATAACTCACTCTCCAGGAGTTTTTTTAACTTAGTTTTATAATGAATACGATAATTAAAAGTgaagaag > 2:819907/1‑289 (MQ=255)
gatgatAAAAATATAAAATTGAGAGTTAATAGTACTATTATGGCCATTGATGATTCTATAAAGTGCATCGATGAATGATAACTTAATTTTATTTAAAAATATATTAATAACTCACTCTCCAGGAGTTTTTTTAACTTAGTTTTATAATGAATACGATAATTAAAAGTGAAGAAGAAAATAGTTGta > 1:182882/1‑186 (MQ=255)
gatgatAAAAATATAAAATTGAGAGTTAATAGTACTATTATGGCCATTGATGATTCTATAAAGTGCATCGATGAATGATAACTTAATTTTATTTAAAAATATATTAATAACTCACTCTCCAGGAGTTTTTTTAACTTAGTTTTATAATGAATACGATAATTAAAAGTGAAGAAGAAAATAGTTGta < 2:182882/186‑1 (MQ=255)
tgatgaTTCTATAAAGTGCATCGATGAATGATAACTTAATTTTATTTAAAAATATATTAATAACTCACTCTCCAGGAGTTTTTTTAACTTAGTTTTATAATGAATACGATAATTAAAAGTGAAGAAGAAAATAGTTGTATACATATATTCCATGACCCTACATTGTGATCTATAGATTAAATATTTTTTAAATGTGACTGTCATCCTTCAGATAATAAAGCCATCATCGCAATAGATGGAAAAGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGaacaac > 1:101741/1‑288 (MQ=255)
tataAAGTGCATCGATGAATGATAACTTAATTTTATTTAAAAATATATTAATAACTCACTCTCCAGGAGTTTTTTTAACTTAGTTTTATAATGAATACGATAATTAAAAGTGAAGAAGAAAATAGTTGTATACATATATTCCATGACCCTACATTGTGATCTATAGATTAAATATTTTTTAAATGTGACTGTCATCCTTCAGATAATAAAGCCATCATCGCAATAGATGGAAAAGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATatcatc > 2:652660/1‑289 (MQ=255)
tcCAGGAGTTTTTTTAACTTAGTTTTATAATGAAAACGATAATTAAAAGTGAAGAAGAAAATAGTTGTATACATATATTCCATGACCCTACATTGTGATCTATAGATTAAATATTTTTTAAATGTGACTGTCATCCTTCAGATAATAAAGCCATCATCGCAATAGATGGAAAAGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCt > 1:616950/1‑260 (MQ=255)
tcCAGGAGTTTTTTTAACTTAGTTTTATAATGAAAACGATAATTAAAAGTGAAGAAGAAAATAGTTGTATACATATATTCCATGACCCTACATTGTGATCTATAGATTAAATATTTTTTAAATGTGACTGTCATCCTTCAGATAATAAAGCCATCATCGCAATAGATGGAAAAGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCt > 1:616954/1‑260 (MQ=255)
tcCAGGAGTTTTTTTAACTTAGTTTTATAATGAAAACGATAATTAAAAGTGAAGAAGAAAATAGTTGTATACATATATTCCATGACCCTACATTGTGATCTATAGATTAAATATTTTTTAAATGTGACTGTCATCCTTCAGATAATAAAGCCATCATCGCAATAGATGGAAAAGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCt < 2:616950/260‑1 (MQ=255)
tcCAGGAGTTTTTTTAACTTAGTTTTATAATGAAAACGATAATTAAAAGTGAAGAAGAAAATAGTTGTATACATATATTCCATGACCCTACATTGTGATCTATAGATTAAATATTTTTTAAATGTGACTGTCATCCTTCAGATAATAAAGCCATCATCGCAATAGATGGAAAAGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCt < 2:616954/260‑1 (MQ=255)
cAGGAGTTTTTTTAACTTAGTTTTATAATGAATACGATAATTAAAAGTGAAGAAGAAAATAGTTGTATACATATATTCCATGACCCTACATTGTGATCTATAGATTAAATATTTTTTAAATGTGACTGTCATCCTTCAGATAATAAAGCCATCATCGCAATAGATGGAAAAGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGCAGAACAAGACGGATAAAAAATCCAAt > 1:290117/1‑289 (MQ=255)
aGTTTTATAATGAATACGATAATTAAAAGTGAAGAAGAAAATAGTTGTATACATATATTCCATGACCCTACATTGTGATCTATAGATTAAATATTTTTTAAATGTGACTGTCATCCTTCAGATAATAAAGCCATCATCGCAATAGATGGAAAAGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGCAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAg < 1:819907/289‑1 (MQ=255)
aaTACGATAATTAAAAGTGAAGAAGAAAATAGTTGTATACATATATTCCATGACCCTACATTGTGATCTATAGATTAAATATTTTTTAAATGTGACTGTCATCCTTCAGATAATAAAGCCATCATCGCAATAGATGGAAAAGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGCAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACa > 2:616042/1‑289 (MQ=255)
|
TATCTGAAAAATCTAAATCCACTCCAACTTGCCGCTGATTGCATTGAAACAGTAAATAAAATAAAAGATAAGAATAAAAAAAATCATTGATATAAATTCAGTTAATATTTGTAGTGATGATAAAAATATAAAATTGAGAGTTAATAGTACTATTATGGCCATTGATGATTCTATAAAGTGCATCGATGAATGATAACTTAATTTTATTTAAAAATATATTAATAACTCACTCTCCAGGAGTTTTTTTAACTTAGTTTTATAATGAATACGATAATTAAAAGTGAAGAAGAAAATAGTTGTATACATATATTCCATGACCCTACATTGTGATCTATAGATTAAATATTTTTTAAATGTGACTGTCATCCTTCAGATAATAAAGCCATCATCGCAATAGATGGAAAAGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGCAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACA > NC_000913/3769591‑3770143
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
