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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,560,500 |
G→A |
39.0% |
R169R (CGG→CGA) |
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 |
| * | minE | 1,560,500 | 0 | G | A | 39.0%
| 42.1
/ 52.9
| 82 | R169R (CGG→CGA) | evgS | hybrid sensory histidine kinase in two‑component regulatory system with EvgA |
| Reads supporting (aligned to +/- strand): ref base G (25/25); new base A (11/21); total (36/46) |
| Fisher's exact test for biased strand distribution p-value = 1.80e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.37e-01 |
AACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATC > minE/1560440‑1560560
|
aaCCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCaa < 1:982478/68‑1 (MQ=255)
aaCCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCaa < 1:1871265/68‑1 (MQ=255)
aaCCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCaa < 1:2615372/68‑1 (MQ=255)
aaCCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCaa < 1:2868754/68‑1 (MQ=255)
aaCCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCaa < 1:1303441/68‑1 (MQ=255)
aaCCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCa < 1:2044955/67‑1 (MQ=255)
aaCCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCa < 1:2405723/67‑1 (MQ=255)
aaCCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCa < 1:1685776/67‑1 (MQ=255)
aaCCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCa < 1:1570436/67‑1 (MQ=255)
aaCCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCa < 1:3095368/67‑1 (MQ=255)
aaCCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCa < 1:1367591/67‑1 (MQ=255)
aaCCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCa < 1:1088256/67‑1 (MQ=255)
aaCCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCa < 1:96176/67‑1 (MQ=255)
accaccCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCa < 1:3108262/66‑1 (MQ=255)
accaccCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAAt > 1:2741257/1‑69 (MQ=255)
caccCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCa < 1:523041/64‑1 (MQ=255)
caccCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCa < 1:2165035/64‑1 (MQ=255)
accCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAc > 1:2014905/1‑69 (MQ=255)
cTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAccc > 1:648517/1‑68 (MQ=255)
cTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAccc > 1:649373/1‑68 (MQ=255)
cTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAccc > 1:720578/1‑68 (MQ=255)
cTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAccc > 1:724204/1‑68 (MQ=255)
cTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAcc > 1:2740070/1‑67 (MQ=255)
cTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGATCGGGTAGCAAATTAccc > 1:358308/1‑68 (MQ=255)
cACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCa > 1:3052156/1‑69 (MQ=255)
cACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCa > 1:1070967/1‑69 (MQ=255)
cACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCa > 1:1270910/1‑69 (MQ=255)
tACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCatcaatc < 1:1097884/69‑1 (MQ=255)
tACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCatcaatc < 1:2733984/69‑1 (MQ=255)
tACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCatcaatc < 1:399491/69‑1 (MQ=255)
aCCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCatcaatca > 1:2299155/1‑69 (MQ=255)
ccTCATCTAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:459659/37‑1 (MQ=25)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:2848389/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:2065864/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:2977523/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:3074132/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:3081428/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:3183102/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:386051/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:1245629/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:1212875/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:666790/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:798337/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:956730/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:1073757/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:1039308/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:2046834/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:2092973/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:2145497/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:2521488/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:261142/37‑1 (MQ=38)
ccTCATCAAAACCAGTAAATATTGCTCGAGTAGCaaa < 1:1702333/37‑1 (MQ=38)
cTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCAt < 1:3024513/68‑1 (MQ=255)
aaaCCAGTAAATATTGCTCGAGTAGCAAATTATCCGCCAGACGAGGTAATTCATCAATCATTTCCaaa > 1:1405377/1‑68 (MQ=255)
aaaCCAGTAAATATTGCTCGAGTAGCAAATTATCCCCCAGACGAGGTAATTCATCAATCATTTCCaaa > 1:347378/1‑68 (MQ=255)
aaaCCAGTAAATATTGCTCGAGTAGCAAATTATCCCCCAGACGAGGTAATTCATCAATCATTTCCaaa > 1:1122477/1‑68 (MQ=255)
aaaCCAGTAAATATTGCTCGAGTAGCAAATTATCCCCCAGACGAGGTAATTCATCAATCATTTCCaaa > 1:682155/1‑68 (MQ=255)
aaaCCAGTAAATATTGCTCGAGTAGCAAATTATCCCCCAGACGAGGTAATTCATCAATCATTTCCaaa > 1:390309/1‑68 (MQ=255)
aaaCCAGTAAATATTGCTCGAGTAGCAAATTATCCCCCAGACGAGGTAATTCATCAATCATTTCCaaa > 1:351294/1‑68 (MQ=255)
aaaCCAGTAAATATTGCTCGAGTAGCAAATTATCCCCCAGACGAGGTAATTCATCAATCATTTCCaaa > 1:2736079/1‑68 (MQ=255)
aaaCCAGTAAATATTGCTCGAGTAGCAAATTATCCCCCAGACGAGGTAATTCATCAATCATTTCCaaa > 1:1544434/1‑68 (MQ=255)
aaaCCAGTAAATATTGCTCGAGTAGCAAATTATCCCCCAGACGAGGTAATTCATCAATCATTTCCaaa > 1:1525446/1‑68 (MQ=255)
aaaCCAGTAAATATTGCTCGAGTAGCAAATTATCCCCCAGACGAGGTAATTCATCAATCATTTCCaaa > 1:299348/1‑68 (MQ=255)
aaaCCAGTAAATATTGCTCGAGTAGCAAATTATCCCCCACACGAGGTAATTCATCAATCATTTCCaaa > 1:1769137/1‑68 (MQ=255)
aaaTATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAAt < 1:3272372/69‑1 (MQ=255)
aaaTATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAAt < 1:3337918/69‑1 (MQ=255)
aaaTATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAAt < 1:2844163/69‑1 (MQ=255)
aaaTATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAAt < 1:1541983/69‑1 (MQ=255)
aaaTATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAAt < 1:2149531/69‑1 (MQ=255)
aaTATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTTCAAAAGcaacaa > 1:2190049/1‑67 (MQ=255)
aaTATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTTCAAAAGCAACAAt > 1:2926413/1‑68 (MQ=255)
aaTATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAAtt > 1:1292572/1‑69 (MQ=255)
aaTATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAAtt > 1:2834593/1‑69 (MQ=255)
tatTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTa > 1:2032076/1‑68 (MQ=255)
tatTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTa > 1:2296698/1‑68 (MQ=255)
tatTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTa > 1:1921206/1‑68 (MQ=255)
tatTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTAt > 1:2931176/1‑69 (MQ=255)
tatTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTAt > 1:2440834/1‑69 (MQ=255)
tatTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTAt > 1:301037/1‑69 (MQ=255)
tatTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTAt > 1:305253/1‑69 (MQ=255)
tatTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTAt > 1:1738539/1‑69 (MQ=255)
tatTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGC‑ACAATTAtc > 1:3030000/1‑69 (MQ=255)
|
AACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCAGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATC > minE/1560440‑1560560
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
