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 |
|
A8 F1 I2 R1
|
765 |
53.2 |
2691310 |
93.4% |
2513683 |
103.8 |
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 | 95.6%
| 152.1
/ ‑0.6
| 45 | coding (518/3594 nt) | evgS | hybrid sensory histidine kinase in two‑component regulatory system with EvgA |
| Reads supporting (aligned to +/- strand): ref base . (0/2); new base C (21/22); total (21/24) |
| Fisher's exact test for biased strand distribution p-value = 4.91e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTCGCCGCCTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTA‑‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACCAG > NC_000913/2484754‑2485023
|
ttCGCCGCCTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTA‑‑c > 2:281465/1‑139 (MQ=255)
ctctTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCCCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTA‑‑CCCCCCAGa < 2:790139/139‑1 (MQ=255)
aatGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTa < 1:849952/139‑1 (MQ=255)
aCATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATtc > 1:564376/1‑139 (MQ=255)
cATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATtca > 2:361674/1‑139 (MQ=255)
cATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATtca > 1:1252456/1‑139 (MQ=255)
ttGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACg < 2:872395/127‑1 (MQ=255)
ttGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACg > 1:872395/1‑127 (MQ=255)
tgctgcAACCAAAACATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATtcatca > 2:904285/1‑139 (MQ=255)
tgcAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTGCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCatcaatc < 2:1153975/139‑1 (MQ=255)
accaaaccaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTA‑‑c < 2:736196/108‑1 (MQ=255)
accaaaccaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTA‑‑c > 1:736196/1‑108 (MQ=255)
accaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCaaa < 1:361674/139‑1 (MQ=255)
ccaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCaaaa < 1:904285/139‑1 (MQ=255)
ccTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTA‑‑c < 1:100454/89‑1 (MQ=255)
ccTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTA‑‑c > 2:100454/1‑89 (MQ=255)
ttCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACg < 1:1269777/97‑1 (MQ=255)
ttCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACg > 2:1269777/1‑97 (MQ=255)
ttCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTaa < 1:435030/103‑1 (MQ=255)
ttCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTaa > 2:435030/1‑103 (MQ=255)
tCCGGCGCCGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTa > 1:566357/1‑84 (MQ=255)
tCCGGCGCCGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTa < 2:566357/84‑1 (MQ=255)
ggCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTAc < 1:281465/139‑1 (MQ=255)
gcgcTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTACCCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTAc > 1:1332381/1‑139 (MQ=255)
gcgcTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACa > 2:680556/1‑139 (MQ=255)
cccTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCa < 1:534971/102‑1 (MQ=255)
cccTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCa > 2:534971/1‑102 (MQ=255)
accTTCACGGCTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTACGGTAGCAAAATAA‑‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAgg < 2:557574/138‑1 (MQ=255)
ttCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTa < 1:166573/81‑1 (MQ=255)
ttCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTa > 2:166573/1‑81 (MQ=255)
cACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTa > 2:1286887/1‑139 (MQ=255)
gACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTAc < 2:573558/117‑1 (MQ=255)
gACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTAc > 1:573558/1‑117 (MQ=255)
gACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCa < 1:1286887/139‑1 (MQ=255)
aCTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTACCCCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCa < 2:1332381/139‑1 (MQ=255)
tGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGc > 1:239602/1‑92 (MQ=255)
tGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGc < 2:239602/92‑1 (MQ=255)
gACCGCTTACCTCACCAAAACCAATAAATATTGCTCGGGTAGC‑AAATTA‑‑cccccc < 2:1141665/55‑1 (MQ=255)
gACCGCTTACCTCACCAAAACCAATAAATATTGCTCGGGTAGC‑AAATTA‑‑cccccc > 1:1141665/1‑55 (MQ=255)
ccGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAg > 1:1345298/1‑86 (MQ=255)
ccGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAg < 2:1345298/86‑1 (MQ=255)
aCCTCACCAAAACCAGTAGATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGcac < 1:905534/139‑1 (MQ=255)
aCCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTatat < 2:968562/104‑1 (MQ=255)
aCCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTatat > 1:968562/1‑104 (MQ=255)
aaCCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGAt < 2:508419/135‑1 (MQ=255)
aaCCAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGAt > 1:508419/1‑135 (MQ=255)
ccAGTAAATATTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACttt > 1:1342390/1‑139 (MQ=255)
atTGCTCGGGTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGgtagt < 2:1252456/139‑1 (MQ=255)
gggTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCCTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAAcatca > 1:1128778/1‑139 (MQ=255)
gTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTAt < 2:1287607/60‑1 (MQ=255)
gTAGC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTAt > 1:1287607/1‑60 (MQ=255)
gC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTgg > 2:292588/1‑123 (MQ=255)
gC‑AAATTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTgg < 1:292588/123‑1 (MQ=255)
aaaTTAC‑CCCCCCAGACTAGGTAATTCATCAATCATTTCCAAAATCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACcag < 2:989153/139‑1 (MQ=255)
aaaTTAC‑CCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACcag < 2:1342390/139‑1 (MQ=255)
|
TTCGCCGCCTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGC‑AAATTA‑‑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
