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 I2 R1
|
774 |
49.2 |
2112398 |
96.9% |
2046913 |
118.5 |
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 | 97.9%
| 158.3
/ NA
| 48 | Y173S (TAC→TCC) | evgS | hybrid sensory histidine kinase in two‑component regulatory system with EvgA |
| Reads supporting (aligned to +/- strand): ref base . (1/0); major base C (24/22); minor base T (0/1); total (25/23) |
| Fisher's exact test for biased strand distribution p-value = 4.89e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
TTCGCCGCCTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTAC > NC_000913/2484754‑2485020
|
ttCGCCGCCTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑‑c < 2:684469/139‑1 (MQ=255)
ccgccTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑‑ccccc < 2:941005/139‑1 (MQ=255)
tctTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑‑cccccccaga < 1:825023/139‑5 (MQ=255)
ttAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACg < 2:939539/139‑1 (MQ=255)
cATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATtca > 1:574174/1‑139 (MQ=255)
ttGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑‑ccccc > 2:704078/1‑120 (MQ=255)
ttGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑‑ccccc < 1:704078/120‑1 (MQ=255)
gctgcAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCatcaa > 1:581672/1‑139 (MQ=255)
gctgcAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCatcaa > 2:402608/1‑139 (MQ=255)
caaaccaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTcc < 2:838823/139‑1 (MQ=255)
aaaccaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCa < 1:402608/139‑1 (MQ=255)
aaccaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCaa > 1:992824/1‑139 (MQ=255)
accaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTa < 2:199218/102‑1 (MQ=255)
accaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTa > 1:199218/1‑102 (MQ=255)
accaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCaaa > 1:579578/1‑139 (MQ=255)
accaTTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCaaa > 1:854945/1‑139 (MQ=255)
ttGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGca < 2:7819/139‑1 (MQ=255)
ttACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAACTa > 2:792858/1‑139 (MQ=255)
ttCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCa < 1:601415/120‑1 (MQ=255)
ttCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCa > 2:601415/1‑120 (MQ=255)
ttCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑‑cccccccaga > 1:240828/1‑91 (MQ=255)
ttCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑‑cccccccaga < 2:240828/95‑5 (MQ=255)
cGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTa < 1:400364/139‑1 (MQ=255)
gcgcTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCGGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACa > 1:723232/1‑139 (MQ=255)
cTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAAt > 2:348549/1‑139 (MQ=255)
gTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTta > 2:220668/1‑139 (MQ=255)
caccCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCa < 2:579578/139‑1 (MQ=255)
ttCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑‑cccccccaga > 2:939484/1‑70 (MQ=255)
ttCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑‑cccccccaga < 1:939484/74‑5 (MQ=255)
gACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCa < 1:838206/139‑1 (MQ=255)
gACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCa < 1:341378/139‑1 (MQ=255)
tGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGtct < 2:992824/139‑1 (MQ=255)
tGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGtct > 1:673944/1‑139 (MQ=255)
ccGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGTCA‑TTAGCATCCGTCTCAGCt > 2:977311/1‑139 (MQ=255)
cGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTg > 1:603360/1‑139 (MQ=255)
cTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTACCCCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTgg > 1:789805/1‑139 (MQ=255)
cTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTggg > 2:188031/1‑139 (MQ=255)
cTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTggg > 1:68887/1‑139 (MQ=255)
ttACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGc < 1:938592/139‑1 (MQ=255)
ttACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGc < 1:935158/139‑1 (MQ=255)
cACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATg > 1:330121/1‑139 (MQ=255)
ccAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGc > 2:366608/1‑131 (MQ=255)
ccAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGc < 1:366608/131‑1 (MQ=255)
ccAAAACCAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGAt < 1:334559/139‑1 (MQ=255)
cAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑‑CCCCCCAAGCGGAGGAAATCCACAATTAATTCCCAAAACCAACAATAACCCCTTTTAC‑AATTTTTATCCAGCATTTAGCTCCCGTCACAGCTggcccaattgata > 1:315533/1‑128 (MQ=255)
cAGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTa < 2:249600/139‑1 (MQ=255)
aGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTAt < 2:581672/139‑1 (MQ=255)
aGTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTAt < 1:792858/139‑1 (MQ=255)
gTAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTAtt > 1:1056137/1‑139 (MQ=255)
tAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGATTACt < 1:854152/133‑1 (MQ=255)
tAAATATTGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGATTACt > 2:854152/1‑133 (MQ=255)
ttGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGgtagta < 2:673944/139‑1 (MQ=255)
ttGCTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGgtagta < 1:977311/139‑1 (MQ=255)
cTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAAca > 1:1045093/1‑139 (MQ=255)
cTCGGGTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAAca > 1:100133/1‑139 (MQ=255)
cgagcaGCAATTTAT‑CCACCC‑AGACGAGCTAATTCATCACTCATTTCCAAAAGCAACTATTATCTCTTTTACAAATTTATCTCAGACC‑TTATCATCCGTCTCAGCTGGGCACAATGATTACTTTATTTGTAGTAAcatc < 2:594938/134‑1 (MQ=255)
gTAGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCAtt > 2:548362/1‑139 (MQ=255)
aGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTAc < 2:574174/139‑1 (MQ=255)
aGCAAATTAC‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTAc < 2:100133/139‑1 (MQ=255)
|
TTCGCCGCCTCTTAATAATGACATTGCTGCAACCAAACCATTGATAATTACCTTTCCGGCGCTGGTAACCACCCTTCACGACTCAATGCGACCGCTTACCTCACCAAAACCAGTAAATATTGCTCGGGTAGCAAATTA‑‑CCCCCC‑AGACGAGGTAATTCATCAATCATTTCCAAAAGCAACAATTATCTCTTTTACAAATTTATATCAGGCA‑TTAGCATCCGTCTCAGCTGGGCACAATGATTACTTTATTGGTAGTAACATCATTAC > NC_000913/2484754‑2485020
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
