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 |
|
A11 F1 I1 R1
|
757 |
76.1 |
3598070 |
93.4% |
3360597 |
108.6 |
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 | 96.7%
| 188.2
/ ‑1.1
| 60 | coding (895/2685 nt) | kdpD | fused sensory histidine kinase in two‑component regulatory system with KdpE: signal sensing protein |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base T (30/28); total (31/29) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
GAATAATCTTGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACG‑‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCA > NC_000913/723391‑723649
|
gaATAATCTTGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACG‑‑ttttttttt < 1:1758748/139‑2 (MQ=255)
tCTTGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTa > 1:1539157/1‑139 (MQ=255)
ttGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg < 2:1539157/139‑1 (MQ=255)
ttGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg < 1:1719922/139‑1 (MQ=255)
ccGAGATTATGTTCATGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg < 2:977412/136‑1 (MQ=255)
ccGAGATTATGTTCATGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg > 1:977412/1‑136 (MQ=255)
ccGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg > 2:1545253/1‑136 (MQ=255)
ccGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg < 1:1545253/136‑1 (MQ=255)
ccGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCgg > 2:1739429/1‑139 (MQ=255)
agaTTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTgc > 2:804115/1‑139 (MQ=255)
ttATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg > 2:599816/1‑130 (MQ=255)
ttATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg < 1:599816/130‑1 (MQ=255)
ttCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTgcagggcagg < 2:863350/139‑1 (MQ=255)
aCGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGt > 1:1041401/1‑139 (MQ=255)
cGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTg > 2:1567380/1‑126 (MQ=255)
cGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTg < 1:1567380/126‑1 (MQ=255)
cGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGtt < 1:271568/139‑1 (MQ=255)
cGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGtt > 2:1025529/1‑139 (MQ=255)
cGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGtt > 2:708503/1‑139 (MQ=255)
cGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACG‑‑TTTTTTTTCCGGTAAg > 1:389886/1‑120 (MQ=255)
cGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACG‑‑TTTTTTTTCCGGTAAg < 2:389886/120‑1 (MQ=255)
aCCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGACTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCCCTGCGAATTGCACGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACcgcg > 1:34223/1‑139 (MQ=255)
cTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg > 2:537659/1‑102 (MQ=255)
cTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg < 1:537659/102‑1 (MQ=255)
cTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACAT‑‑ACCGCGTGCCAg > 1:1250939/1‑139 (MQ=255)
cGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg > 2:550624/1‑92 (MQ=255)
cGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg < 1:550624/92‑1 (MQ=255)
ttGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCATGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAgcc > 2:1681908/1‑139 (MQ=255)
ttGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGttt > 1:583064/1‑94 (MQ=255)
ttGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGttt < 2:583064/94‑1 (MQ=255)
tGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTTCCGGTAAg > 1:1255390/1‑75 (MQ=255)
tGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTTCCGGTAAg < 2:1255390/75‑1 (MQ=255)
ccGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg < 1:767086/72‑1 (MQ=255)
ccGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg > 2:767086/1‑72 (MQ=255)
ccGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg < 1:1600748/72‑1 (MQ=255)
ccGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAg > 2:1600748/1‑72 (MQ=255)
cGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAgccgcgc > 1:233370/1‑139 (MQ=255)
cgcCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTgcgc > 2:1079426/1‑139 (MQ=255)
cAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGAc < 1:1739429/139‑1 (MQ=255)
cAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGAc < 2:1041401/139‑1 (MQ=255)
aGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGAcc > 2:479224/1‑139 (MQ=255)
gTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGTTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGAcc > 1:7890/1‑139 (MQ=255)
ccTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGtt > 2:137509/1‑139 (MQ=255)
tGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGtttt > 2:1126127/1‑139 (MQ=255)
cgcCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGtt > 2:1088713/1‑68 (MQ=255)
cgcCAGACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGtt < 1:1088713/68‑1 (MQ=255)
gACGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGc < 2:491656/139‑1 (MQ=255)
aCGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGcc < 1:137509/139‑1 (MQ=255)
cGTAAGGCGCTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCg < 1:1683207/139‑1 (MQ=255)
cTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAgggg < 2:1172045/50‑1 (MQ=255)
cTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAgggg > 1:1172045/1‑50 (MQ=255)
cTGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATgg > 2:94608/1‑139 (MQ=255)
tGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGc < 1:804115/139‑1 (MQ=255)
tGAGAATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGc < 1:479224/139‑1 (MQ=255)
gagaATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGcc < 1:1025529/139‑1 (MQ=255)
agaATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCg < 1:982354/139‑1 (MQ=255)
gaATTGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGa < 2:409895/139‑1 (MQ=255)
ttGCCCGACGTTTTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATg < 2:7890/139‑1 (MQ=255)
tGCCCGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCa > 1:1420569/1‑139 (MQ=255)
cccGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAgccgcgccg < 2:61165/94‑1 (MQ=255)
cccGACGT‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAgccgcgccg > 1:61165/1‑94 (MQ=255)
|
GAATAATCTTGCCGAGATTATGTTCACGGGCATAACGCACTACCGCTTTCTCTTCCGCTGGATCAGAAAGTGTTGCCGTCTCCGCGCCCAGTTCCTGCGCCAGACGTAAGGCGCTGAGAATTGCCCGACG‑‑TTTTTTTTCCGGTAAGCGGTGCAGGGCAGGGGTTTCAACATACACCGCGTGCCAGACGCTACCCAGCCGTGACGCCAGCCGCGCCGCTGCGCGGACCAGTTTTTCGCTGCCGGTGTTATGGCCGATGCA > NC_000913/723391‑723649
|
| 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
