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 I1 R1
|
757 |
76.1 |
3598070 |
93.4% |
3360597 |
108.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,165,573 |
(C)6→7 |
intergenic (+52/‑95) |
yegP → / → yegQ |
UPF0339 family protein/putative peptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,165,567 | 1 | . | C | 97.6%
| 145.3
/ ‑3.5
| 42 | intergenic (+46/‑101) | yegP/yegQ | UPF0339 family protein/putative peptidase |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base C (21/20); total (21/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
AGCCAGATGTACGCCACCGCGCAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAG‑CC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTAAACCGGAACTCCTTTCCCCGGCGGGA > NC_000913/2165429‑2165700
|
agccagATGTACGCCACCGCGCAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCagag > 2:1207889/1‑139 (MQ=255)
gTACGCCACCGCGCAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGTAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAG‑cc‑ccccca < 2:1118379/139‑3 (MQ=255)
aCGCCACCGCGCAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAG‑cc‑cccccaca < 2:259798/139‑5 (MQ=255)
cGCCACCGCGCAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAG‑cc‑cccccacag > 2:1257275/1‑134 (MQ=255)
cGCCACCGCGCAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAG‑cc‑cccccacag > 1:1044492/1‑134 (MQ=255)
ccGCGCAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCagag < 2:312398/123‑1 (MQ=255)
ccGCGCAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCagag > 1:312398/1‑123 (MQ=255)
cgcAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACaa > 2:914212/1‑139 (MQ=255)
ctcGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAAATACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATgcccg < 2:54382/139‑1 (MQ=255)
cGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTT‑GCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTaaa < 2:1049790/136‑1 (MQ=255)
cGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTT‑GCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTaaa > 1:1049790/1‑136 (MQ=255)
gAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTgg < 1:914212/139‑1 (MQ=255)
tGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGc < 2:55058/139‑1 (MQ=255)
gCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCa < 1:1207889/139‑1 (MQ=255)
gCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCa < 2:1044492/139‑1 (MQ=255)
cTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACt > 1:250199/1‑139 (MQ=255)
tCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTc < 1:361356/139‑1 (MQ=255)
ccAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTTGCGTCCGGCGCTTTACCAGAG‑CCTCCCCACAGCGCTACAATGCCCGCCATTAATGTGGGGGCACTCCCCTAACCGc < 1:810581/139‑1 (MQ=255)
aTGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAG‑cc‑ccccca > 2:202789/1‑87 (MQ=255)
aTGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAG‑cc‑ccccca < 1:202789/89‑3 (MQ=255)
caAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAgg > 2:79998/1‑139 (MQ=255)
aGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGc > 2:335905/1‑139 (MQ=255)
gACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATgcc > 2:1438191/1‑91 (MQ=255)
gACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATgcc < 1:1438191/91‑1 (MQ=255)
gAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTg > 1:1713880/1‑139 (MQ=255)
gAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTg > 1:233197/1‑139 (MQ=255)
aaaGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAg > 1:1378684/1‑130 (MQ=255)
aaaGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAg < 2:1378684/130‑1 (MQ=255)
aaGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGAc < 1:335905/139‑1 (MQ=255)
tACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGtcat > 2:1155117/1‑139 (MQ=255)
gTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAg < 1:1155117/139‑1 (MQ=255)
aTTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAAc > 2:202179/1‑139 (MQ=255)
cGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGaa < 1:312387/134‑1 (MQ=255)
cGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGaa > 2:312387/1‑134 (MQ=255)
cGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACgaga > 2:863546/1‑139 (MQ=255)
aTGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCa < 1:199017/83‑1 (MQ=255)
aTGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCa > 2:199017/1‑83 (MQ=255)
tGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCa < 1:1571586/82‑1 (MQ=255)
tGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCa > 2:1571586/1‑82 (MQ=255)
ggCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCa > 1:658999/1‑77 (MQ=255)
ggCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCa < 2:658999/77‑1 (MQ=255)
ggCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATg > 2:1502748/1‑139 (MQ=255)
gTGGGTTGTTGGCGTCCGGCGCTTTACCAGAG‑cc‑ccccca > 1:1224350/1‑38 (MQ=255)
gTGGGTTGTTGGCGTCCGGCGCTTTACCAGAG‑cc‑ccccca < 2:1224350/40‑3 (MQ=255)
ggTTGTTGGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTaaa > 1:144787/1‑139 (MQ=255)
ttgGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTAAACCGGa > 2:1547281/1‑139 (MQ=255)
ttgGCGTCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTAAACCGGa < 1:1257275/139‑1 (MQ=255)
tCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGtt < 2:1628410/124‑1 (MQ=255)
tCCGGCGCTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGtt > 1:1628410/1‑124 (MQ=255)
gcgcTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTtcat > 2:1470334/1‑74 (MQ=255)
gcgcTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTtcat < 1:1470334/74‑1 (MQ=255)
gcgcTTTACCAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTAAACCGGAACTCCTTTcc < 2:144787/139‑1 (MQ=255)
cAGAGCCC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTAAACCGGAACTCCTTTCCCCGGCGGGa < 1:1547281/139‑1 (MQ=255)
|
AGCCAGATGTACGCCACCGCGCAATCTCGTGAAACCGGAATTGCCTCCGTTAAAGCCAATGGCACAAGCCAGACGGTGAAAGACAATACGTAATTACGATGCCGGGCGTGGGTTGTTGGCGTCCGGCGCTTTACCAGAG‑CC‑CCCCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCTTCATCAGGTGAAGCGGATCTGACCTGTCATCAGAACGAGAGAATTATGTTTAAACCGGAACTCCTTTCCCCGGCGGGA > NC_000913/2165429‑2165700
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
