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 |
|
A11 F1 I2 R1
|
59 |
52.6 |
2411032 |
94.1% |
2268781 |
113.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,350,184 |
(C)7→8 |
coding (276/654 nt) |
elbB ← |
isoprenoid biosynthesis protein with amidotransferase‑like domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,350,177 | 1 | . | C | 97.6%
| 150.5
/ ‑3.5
| 41 | coding (283/654 nt) | elbB | isoprenoid biosynthesis protein with amidotransferase‑like domain |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base C (21/19); total (22/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
GCATCGCCGGGGCAATACACATAAAACCAAGCGGTTTTCCGGCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAA‑‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCACCGCGCGTTATTCGTGCCGCTTCAATCAGCACATTGCGCGTTTCCGTCATCGCTTCGCCAGTTAAATGG > NC_000913/3350039‑3350310
|
gcaTCGCCGGGGCAATACACATAAAACCAAGCGGTTTTCCGGCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCaaa > 1:1099186/1‑139 (MQ=255)
caTCGCCGGGGCAATACACATAAAACCAAGCGGTTTTCCGGCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAA‑‑c > 1:1005084/1‑139 (MQ=255)
cGGGGCAATACACATAAAACCAAGCGGTTTTCCGGCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAA‑‑cc‑ccccc < 2:967173/139‑1 (MQ=255)
cGGGGCAATACACATAAAACCAAGCGGTTTTCCGGCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAA‑‑cc‑ccccc < 2:457142/139‑1 (MQ=255)
ggCAATACACATAAAACCAAGCGGTTTTCCGGCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAA‑‑cc‑ccccccgg < 2:1005084/139‑4 (MQ=255)
gCAATACACATAAAACCAAGCGGTTTTCCGGCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATACTTCGCCGCGCCAAA‑‑cc‑ccccccggc > 2:770118/1‑135 (MQ=255)
aaTACACATAAAACCAAGCGGTTTTCCGGCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGcac > 2:748800/1‑139 (MQ=255)
aaaCCAAGCGGTTTTCCGGCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAA‑‑CCACCCCCGGCTCAATCAACGCa > 1:785280/1‑139 (MQ=255)
aGCGGTTTTCCGGCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAACCCC‑CCCCCGGCACAATCAACGCATCCAg > 1:1003875/1‑139 (MQ=255)
aGCGGTTTTCCGGCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGt > 2:188130/1‑139 (MQ=255)
gCGGTTTTCCGGCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAA‑‑cc‑ccccccg < 1:498669/118‑3 (MQ=255)
gCGGTTTTCCGGCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCACCGCGCCAAA‑‑cc‑ccccccg > 2:498669/1‑116 (MQ=255)
ggCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAACCCC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCAt < 2:1003875/139‑1 (MQ=255)
gCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCg > 2:328680/1‑139 (MQ=255)
tGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGcc < 2:1099186/139‑1 (MQ=255)
tGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTgg > 1:876146/1‑139 (MQ=255)
tCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCa > 2:884070/1‑139 (MQ=255)
tCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCa > 2:1124708/1‑139 (MQ=255)
cTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCagag > 1:136110/1‑139 (MQ=255)
gtgCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGAc > 1:209899/1‑139 (MQ=255)
tgCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACaa < 2:178015/96‑1 (MQ=255)
tgCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACaa > 1:178015/1‑96 (MQ=255)
cAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTTCCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGAt < 1:760080/139‑1 (MQ=255)
cgcCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACACTCAACGCATCCAGTTCAGCGGCATCGGCCTGGGcc < 2:1149608/125‑1 (MQ=255)
cgcCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGcc > 1:1149608/1‑125 (MQ=255)
cgcCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTc > 1:1028397/1‑139 (MQ=255)
cTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCAcc < 2:1028397/139‑1 (MQ=255)
cTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCAcc < 1:748800/139‑1 (MQ=255)
cTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCAcc < 1:475783/139‑1 (MQ=255)
tttAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCACcg < 1:188130/139‑1 (MQ=255)
aCGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCACCGCGCGTTAt < 2:176129/139‑1 (MQ=255)
aCGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCACCGCGCGTTAt > 2:599240/1‑139 (MQ=255)
ggTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCAt > 1:1032530/1‑100 (MQ=255)
ggTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCAt < 2:1032530/100‑1 (MQ=255)
ggTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCACCGCGCGTTATTc > 1:771575/1‑139 (MQ=255)
cAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCACCGCGCGTTATTCGTg < 2:209899/139‑1 (MQ=255)
aCCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCACCGCGCGTTATTCGTGCCGCt > 2:132642/1‑128 (MQ=255)
aCCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCACCGCGCGTTATTCGTGCCGCt < 1:132642/128‑1 (MQ=255)
aCTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCACCGCGCGTTATTCGTGCCGCTTCAATCAGCACATTgcg < 1:884070/139‑1 (MQ=255)
gCAAAATTGCTTAAATTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGAGGCATCGGCCTGGGCCAGAGGACGGATTTCACCGCGCGTTATTCGTGCCGCTTCAATCAGCACATTGCGCGtt > 2:825653/1‑139 (MQ=255)
ttGCTTAAATTCTTCGTCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCACCGCGCGTTATTCGTGCCGCTTCAATCAGCACATTGCGCGTTTCCGTc < 1:117279/139‑1 (MQ=255)
aTTCTTCGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCACCGCGCGTTATTCGTGCCGCTTCAATCAGCACATTGCGCGTTTCCGTCATCGCTTc < 1:102665/139‑1 (MQ=255)
tcGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCAc > 2:231975/1‑79 (MQ=255)
tcGCCGCGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCAc < 1:231975/79‑1 (MQ=255)
cgccgcGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAgg < 1:61167/67‑1 (MQ=255)
cgccgcGCCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAgg > 2:61167/1‑67 (MQ=255)
cgcCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCACCGCGCGTTATTCGTGCCGCTTCAATCAGCACATTGCGCGTTTCCGTCATCGCTTCGCCAGTTAAAt > 1:663938/1‑139 (MQ=255)
gcCAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCACCGCGCGTTATTCGTGCCGCTTCAATCAGCACATTGCGCGTTTCCGTCATCGCTTCGCCAGTTAAATg > 1:522676/1‑139 (MQ=255)
ccAAAC‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCACCGCGCGTTATTCGTGCCGCTTCAATCAGCACATTGCGCGTTTCCGTCATCGCTTCGCCAGTTAAATgg < 1:697407/139‑1 (MQ=255)
|
GCATCGCCGGGGCAATACACATAAAACCAAGCGGTTTTCCGGCCTGATGCATCGCTTGTGCCAGCGCCTTTAATTCACGGTCAACGGTGCATTCGCTACCAAGACTGGCAAAATTGCTTAAATTCTTCGCCGCGCCAAA‑‑CC‑CCCCCGGCACAATCAACGCATCCAGTTCAGCGGCATCGGCCTGGGCCAGAGGACGGATTTCACCGCGCGTTATTCGTGCCGCTTCAATCAGCACATTGCGCGTTTCCGTCATCGCTTCGCCAGTTAAATGG > NC_000913/3350039‑3350310
|
| 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
