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 |
|
A13 F1 I2 R1
|
762 |
35.5 |
1545288 |
95.5% |
1475750 |
117.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,484,897 |
(C)6→7 |
coding (524/3594 nt) |
evgS → |
hybrid sensory histidine kinase in two‑component regulatory system with EvgA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,484,891 | 1 | . | C | 98.2%
| 181.6
/ ‑3.7
| 54 | coding (518/3594 nt) | evgS | hybrid sensory histidine kinase in two‑component regulatory system with EvgA |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base C (25/28); total (26/28) |
| Fisher's exact test for biased strand distribution p-value = 4.81e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-01 |
TTCGCCGCCTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑A‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACCAG > NC_000913/2484754‑2485023
|
ttCGCCGCCTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑A‑c > 2:84680/1‑139 (MQ=255)
ttCGCCGCCTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑A‑c < 1:305667/139‑1 (MQ=255)
cgccTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑A‑cccccc > 1:624525/1‑139 (MQ=255)
atGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTaa < 1:100156/139‑1 (MQ=255)
tGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAAAGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGATGTAAt > 1:479946/1‑139 (MQ=255)
aCATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑A‑c > 2:382676/1‑119 (MQ=255)
aCATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑A‑c < 1:382676/119‑1 (MQ=255)
ttGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATtcatc > 2:704882/1‑139 (MQ=255)
ttGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATtcatc < 2:57782/139‑1 (MQ=255)
aTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGc < 1:668572/139‑1 (MQ=255)
aTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGc < 2:8815/139‑1 (MQ=255)
ttGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGca > 2:542708/1‑139 (MQ=255)
tGATAATTTCCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATTCGACCGCGTACCTCACCAAACCCCGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGcaa < 2:498306/139‑1 (MQ=255)
tGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGcaa > 2:715331/1‑139 (MQ=255)
tGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGcaa > 1:151312/1‑139 (MQ=255)
tACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTAt > 1:745922/1‑139 (MQ=255)
ccTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTAtct > 2:90048/1‑139 (MQ=255)
ttCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTAtct < 2:769757/136‑1 (MQ=255)
ttCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTAtct > 1:769757/1‑136 (MQ=255)
cGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTa < 1:406287/139‑1 (MQ=255)
ggCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTAc < 2:124725/139‑1 (MQ=255)
cgcTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑A‑c > 1:416327/1‑80 (MQ=255)
cgcTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑A‑c < 2:416327/80‑1 (MQ=255)
accaccCTTCACGACTCAATGCGACCGCTTACCTCACCAAATCCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTatat < 2:125192/139‑1 (MQ=255)
accaccCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTatat < 2:745922/139‑1 (MQ=255)
accCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAg < 1:84680/139‑1 (MQ=255)
ttCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGc < 1:180877/104‑1 (MQ=255)
ttCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGc > 2:180877/1‑104 (MQ=255)
tCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCAtt > 2:247802/1‑139 (MQ=255)
tCAAGAATCAATGCGACCGCTTACCTCACGAAAAACAGTAAATATTGCTAGGGTAGGAAATTAA‑CGCACCAGACGGGGTAAGTCATAAATCATTTCCAAAAGAAACAATTATATCTTTTACAAATTAATATCAGGAAtt > 2:222176/1‑139 (MQ=255)
aaTGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGt > 2:411117/1‑139 (MQ=255)
ccGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGtct < 2:143544/134‑1 (MQ=255)
ccGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGtct > 1:143544/1‑134 (MQ=255)
cTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGcaa > 2:502278/1‑86 (MQ=255)
cTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGcaa < 1:502278/86‑1 (MQ=255)
cTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTggg > 2:717494/1‑139 (MQ=255)
tACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGca < 1:411117/139‑1 (MQ=255)
ccAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGAt < 1:715331/139‑1 (MQ=255)
cAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGAtt > 1:52693/1‑139 (MQ=255)
aaaaCCAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTa < 1:704882/139‑1 (MQ=255)
ccAGTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACttt > 1:178363/1‑139 (MQ=255)
gTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATtcat > 1:186132/1‑49 (MQ=255)
gTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATtcat < 2:186132/49‑1 (MQ=255)
gTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGa < 1:754950/129‑1 (MQ=255)
gTAAATATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGa > 2:754950/1‑129 (MQ=255)
aaaTATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTa < 2:472518/81‑1 (MQ=255)
aaaTATTGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTa > 1:472518/1‑81 (MQ=255)
tGCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTaa < 2:624525/139‑1 (MQ=255)
gCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAAc > 2:424140/1‑139 (MQ=255)
gCTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAAc > 1:451395/1‑139 (MQ=255)
cTCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGAATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAAca > 2:408243/1‑139 (MQ=255)
tCGGGTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAAcat > 2:40203/1‑139 (MQ=255)
gTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTatat < 1:395466/79‑1 (MQ=255)
gTAGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGAAACAATTATCTCTTTTACAAATTTatat > 2:395466/1‑79 (MQ=255)
aGCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTAc < 1:429851/139‑1 (MQ=255)
gCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTAcc < 2:479946/139‑1 (MQ=255)
gCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTAcc < 2:433371/139‑1 (MQ=255)
gCAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTAcc < 1:90048/139‑1 (MQ=255)
cAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTAt > 2:629439/1‑56 (MQ=255)
cAAATT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTAt < 1:629439/56‑1 (MQ=255)
aaaTT‑ACCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACcag < 2:75864/139‑1 (MQ=255)
|
TTCGCCGCCTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATT‑A‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACCAG > NC_000913/2484754‑2485023
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
