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 |
|
A7 F1 I2 R1
|
766 |
64.2 |
3232166 |
90.9% |
2938038 |
104.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,612,289 |
G→A |
*54* (TAG→TAA) |
ytjA → |
uncharacterized protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,612,289 | 0 | G | A | 95.1%
| 124.8
/ ‑0.5
| 41 | coding (162/162 nt) | ytjA | uncharacterized protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (20/19); minor base . (1/1); total (21/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.27e-01 |
GTTATCGCGTTAATCGCCGCCGCACTTGGGTTTGGTGGTCTGGCCGGTACCGCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAGATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTCACAACAAAAACAGGAAGGCAGAGGTGGGGCAGCG > NC_000913/4612155‑4612421
|
gTTATCGCGTTAATCGCCGCCGCACTTGGGTTTGGTGGTCTGGCCGGTACCGCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAAttt > 2:442804/1‑139 (MQ=255)
aTCGCGTTAATCGCCGCCGCACTTGGGTTTGGTGGTCTGGCCGGTACCGCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAg > 2:1418191/1‑139 (MQ=255)
tggtCTGGCCGGTACCGCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTcc > 1:249071/1‑139 (MQ=255)
cTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGc > 1:904261/1‑139 (MQ=255)
cTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTA‑ATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAg > 1:1589826/1‑123 (MQ=255)
cTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTA‑ATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAg < 2:1589826/123‑1 (MQ=255)
cgcAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTa < 1:1418191/139‑1 (MQ=255)
tCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAAtt < 2:904261/139‑1 (MQ=255)
cTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTg > 2:726864/1‑139 (MQ=255)
ttGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCg < 2:1244914/139‑1 (MQ=255)
tGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGa < 2:629841/103‑1 (MQ=255)
tGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGa > 1:629841/1‑103 (MQ=255)
tcgtcgGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGc < 2:692339/89‑1 (MQ=255)
tcgtcgGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGc > 1:692339/1‑89 (MQ=255)
ttCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGc < 2:806000/72‑1 (MQ=255)
ttCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGc > 1:806000/1‑72 (MQ=255)
ttCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATaaa < 2:100054/114‑1 (MQ=255)
ttCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATaaa > 1:100054/1‑114 (MQ=255)
cTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTCacaac < 1:726864/139‑1 (MQ=255)
ggTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTCAcaacaa > 2:596320/1‑139 (MQ=255)
gTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATcc > 2:632485/1‑57 (MQ=255)
gTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATcc < 1:632485/57‑1 (MQ=255)
gTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGc > 1:1551613/1‑94 (MQ=255)
gTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGc < 2:1551613/94‑1 (MQ=255)
tttGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTa > 1:1390410/1‑91 (MQ=255)
tttGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTa < 2:1390410/91‑1 (MQ=255)
tGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTCACAACAAAAACAGGa > 2:863752/1‑139 (MQ=255)
tGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTCACAACAAAAACAGGa < 1:804991/139‑1 (MQ=255)
tCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTc > 1:680871/1‑121 (MQ=255)
tCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTc < 2:680871/121‑1 (MQ=255)
tGGGCCGAAAACGACCCTAAATTTCAGACCGTTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTg < 1:392335/75‑1 (MQ=255)
tGGGCCGAAAACGACCCTAAATTTCAGACCGTTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTg > 2:392335/1‑75 (MQ=255)
tGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGa < 2:267939/65‑1 (MQ=255)
tGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGa > 1:267939/1‑65 (MQ=255)
gggCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGc > 1:857454/1‑84 (MQ=255)
gggCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGc < 2:857454/84‑1 (MQ=255)
cGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTcac < 2:91130/115‑1 (MQ=255)
cGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTcac > 1:91130/1‑115 (MQ=255)
gAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTCACAACAAAAACAGGAAGGCAGAGGTgg > 1:1337009/1‑139 (MQ=255)
aCCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTCACAACAAAAACAGGAAGGCAGAGGTGGGGCAGCg < 2:1337009/139‑1 (MQ=255)
aCCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGGTACTTTGTAATTCTTTCACAACAAAAAGAGGAAGGCAGAGGTGGGGCAGCg < 1:486862/139‑1 (MQ=255)
|
GTTATCGCGTTAATCGCCGCCGCACTTGGGTTTGGTGGTCTGGCCGGTACCGCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAGATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTCACAACAAAAACAGGAAGGCAGAGGTGGGGCAGCG > NC_000913/4612155‑4612421
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
