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 |
|
A10 F1 I2 R1
|
757 |
38.1 |
1607544 |
96.5% |
1551279 |
117.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
723,528 |
(T)8→9 |
coding (887/2685 nt) |
kdpD ← |
fused sensory histidine kinase in two‑component regulatory system with KdpE: signal sensing protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 723,520 | 1 | . | T | 100.0%
| 111.1
/ NA
| 36 | R299S (CGT→AGT) | kdpD | fused sensory histidine kinase in two‑component regulatory system with KdpE: signal sensing protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base T (16/20); total (16/20) |
GGCGACCGAGAATAATCTTGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACG‑‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATG > NC_000913/723382‑723647
|
ggCGACCGAGAATAATCTTGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACg > 1:294472/1‑139 (MQ=255)
atCTTGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGt < 2:294472/139‑1 (MQ=255)
ttGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg < 2:242863/139‑1 (MQ=255)
ttGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg < 1:465595/139‑1 (MQ=255)
gagaTTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTg < 1:387121/139‑1 (MQ=255)
gagaTTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTg < 1:802896/139‑1 (MQ=255)
gaTTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTgca < 1:3133/139‑1 (MQ=255)
cGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGtt > 1:603487/1‑139 (MQ=255)
gggCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg < 2:689843/120‑1 (MQ=255)
gggCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg > 1:689843/1‑120 (MQ=255)
gggCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGttt > 1:478596/1‑139 (MQ=255)
aCGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATa < 2:554523/139‑1 (MQ=255)
cTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACcg > 1:607417/1‑139 (MQ=255)
gCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGc < 1:205768/139‑1 (MQ=255)
tctcTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGa < 2:449962/139‑1 (MQ=255)
aaaGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg < 2:790460/81‑1 (MQ=255)
aaaGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg > 1:790460/1‑81 (MQ=255)
tgtTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGcc > 1:475287/1‑114 (MQ=255)
tgtTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGcc < 2:475287/114‑1 (MQ=255)
gCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAgccgc > 1:675001/1‑139 (MQ=255)
tcCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTg > 1:475748/1‑72 (MQ=255)
tcCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTg < 2:475748/72‑1 (MQ=255)
tcCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAgggg > 1:346147/1‑83 (MQ=255)
tcCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAgggg < 2:346147/83‑1 (MQ=255)
tcCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCt > 1:26613/1‑139 (MQ=255)
tcCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCt > 1:416363/1‑139 (MQ=255)
ttCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg > 2:430516/1‑56 (MQ=38)
ttCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg < 1:430516/56‑1 (MQ=38)
ttCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGtt > 2:740944/1‑74 (MQ=255)
ttCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGtt < 1:740944/74‑1 (MQ=255)
cTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGtt < 2:63824/52‑1 (MQ=255)
cTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGtt > 1:63824/1‑52 (MQ=255)
cTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATgg > 2:91761/1‑139 (MQ=255)
tGAGAATTGCCCGACGTTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATgg > 2:674214/1‑139 (MQ=255)
gaATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGa < 2:603487/139‑1 (MQ=255)
aTTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATg < 2:305761/139‑1 (MQ=255)
ttGCCCGACGTTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATg < 1:674214/139‑1 (MQ=255)
|
GGCGACCGAGAATAATCTTGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACG‑‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATG > NC_000913/723382‑723647
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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
