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 |
|
A14 F1 I1 R1
|
770 |
68.5 |
3470224 |
91.7% |
3182195 |
103.4 |
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 | 97.7%
| 145.4
/ ‑3.5
| 43 | 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 (21/21); total (22/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.79e-01 |
CTTCGCCGCCTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑CC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACC > NC_000913/2484753‑2485021
|
cTTCGCCGCCTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTa < 2:309354/139‑1 (MQ=255)
ttCGCCGCCTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTTGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑c < 1:1043368/139‑1 (MQ=255)
ccgccTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑c > 2:556517/1‑135 (MQ=255)
ccgccTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑c < 1:556517/135‑1 (MQ=255)
ccTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑cc‑ccccca < 2:1342384/139‑3 (MQ=255)
ctTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGTCTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑cc‑cccccagac < 2:1277421/139‑6 (MQ=255)
tGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAAt > 1:370507/1‑139 (MQ=255)
tGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑CCACCCCAGACGAGGTAAt > 2:933017/1‑139 (MQ=255)
aCATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑cc‑ccccca < 2:695969/126‑3 (MQ=255)
aCATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑cc‑ccccca > 1:695969/1‑124 (MQ=255)
gcAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCatcaatca > 2:1279173/1‑139 (MQ=255)
accaaaccaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCatcaa < 2:570085/133‑1 (MQ=255)
accaaaccaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCatcaa > 1:570085/1‑133 (MQ=255)
accaaaccaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑cc‑c < 2:1193883/110‑1 (MQ=255)
accaaaccaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑cc‑c > 1:1193883/1‑110 (MQ=255)
accaaaccaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑c < 1:1144309/108‑1 (MQ=255)
accaaaccaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑c > 2:1144309/1‑108 (MQ=255)
caTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAg < 1:545073/139‑1 (MQ=255)
ttGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGca < 2:102283/139‑1 (MQ=255)
gATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAgg < 2:1039725/111‑1 (MQ=255)
gATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAgg > 1:1039725/1‑111 (MQ=255)
gATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTaa < 2:10341/114‑1 (MQ=255)
gATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTaa > 1:10341/1‑114 (MQ=255)
aaTTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAAt > 1:1222773/1‑139 (MQ=255)
tCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCttt > 2:53049/1‑139 (MQ=255)
cGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTa < 2:370507/139‑1 (MQ=255)
gTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTta > 1:1724883/1‑139 (MQ=255)
ttCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCCGAAGAGGTAATTCATCAATTCTTTCCAAAAGCAAAAATTAACCCTTTTACAAATTtaatacaagcct > 2:44850/1‑129 (MQ=255)
ttCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATtcat > 1:559826/1‑87 (MQ=255)
ttCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATtcat < 2:559826/87‑1 (MQ=255)
ttCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑cc‑cccccaga > 2:189963/1‑70 (MQ=255)
ttCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑cc‑cccccaga < 1:1642761/74‑5 (MQ=255)
ttCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑cc‑cccccaga > 2:1642761/1‑70 (MQ=255)
ttCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑cc‑cccccaga < 1:189963/74‑5 (MQ=255)
tCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTatat > 2:1734624/1‑131 (MQ=255)
tCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTatat < 1:1734624/131‑1 (MQ=255)
gACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCa > 2:115704/1‑139 (MQ=255)
cTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTa > 1:1005611/1‑57 (MQ=255)
cTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGCGTAGCAAACTa < 2:1005611/57‑1 (MQ=255)
aaTGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGt < 1:1054392/139‑1 (MQ=255)
tGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAAt < 2:1209303/114‑1 (MQ=255)
tGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAAt > 1:1209303/1‑114 (MQ=255)
gACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAg < 1:933017/139‑1 (MQ=255)
ccGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGt < 2:1526866/63‑1 (MQ=255)
ccGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGt > 1:1526866/1‑63 (MQ=255)
ccGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑cc‑cccccaga > 2:1662756/1‑53 (MQ=255)
ccGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑cc‑cccccaga < 1:1662756/57‑5 (MQ=255)
cTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTggg > 2:1719806/1‑139 (MQ=255)
aaCCAGTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACt < 2:1222773/139‑1 (MQ=255)
gTAAATATTGTTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTAtt > 2:1232697/1‑139 (MQ=255)
gTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGAtt < 2:480584/131‑1 (MQ=255)
gTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGAtt > 1:480584/1‑131 (MQ=255)
gTAAATATTGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTAtt < 1:115704/139‑1 (MQ=255)
tGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGt < 2:1020683/103‑1 (MQ=255)
tGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGt > 1:1020683/1‑103 (MQ=255)
tGCTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTaa > 1:730530/1‑139 (MQ=255)
cTCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAAca < 1:1279173/139‑1 (MQ=255)
tCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAgg > 1:857508/1‑87 (MQ=255)
tCGGGTAGCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAgg < 2:857508/87‑1 (MQ=255)
gCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTAcc < 1:53049/139‑1 (MQ=255)
gCAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTAcc < 2:730530/139‑1 (MQ=255)
cAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAg < 2:1446327/46‑1 (MQ=255)
cAAATTACCC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAg > 1:1446327/1‑46 (MQ=255)
|
CTTCGCCGCCTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑CC‑CCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCATTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTACC > NC_000913/2484753‑2485021
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
