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 |
|
A9 F200 I1 R1
|
100 |
75.0 |
3643689 |
96.7% |
3523447 |
99.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,103,886 |
A→G |
Y364H (TAT→CAT) |
cpxA ← |
sensory histidine kinase in two‑component regulatory system with CpxR |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,103,886 | 0 | A | G | 95.7%
| 228.3
/ ‑2.0
| 70 | Y364H (TAT→CAT) | cpxA | sensory histidine kinase in two‑component regulatory system with CpxR |
| Reads supporting (aligned to +/- strand): ref base A (2/1); new base G (35/32); total (37/33) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGATCTTCCGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCGGGAAGTTAACTGTCAA > NC_000913/4103789‑4103982
|
cgATCTTCCGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGAc < 1:1478454/100‑1 (MQ=255)
cTTCCGGTCTAACGCCAGGACCATAGACGTCCACCGTAATGGAAATACCGTCTTTATCCACGGCAAAGCGCACTGCAATCTTCGCATGGGAATAACGCag > 1:626982/1‑100 (MQ=255)
cTTCCGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCag > 1:643297/1‑100 (MQ=255)
cTTCCGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCag < 2:1315602/100‑1 (MQ=255)
ttCCGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCag < 2:1315459/99‑1 (MQ=255)
gCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTa < 2:1213728/100‑1 (MQ=255)
gCTAACGCCAGGACCATCGTCGGCCACCGTAATGGTGATACCGTGTTTATCTACCGCAACGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTa < 1:606265/100‑1 (MQ=255)
aaCGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTAc > 2:427101/1‑98 (MQ=255)
aaCGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGa > 2:718900/1‑100 (MQ=255)
aCGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGaa < 2:867573/100‑1 (MQ=255)
ccAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACaa > 1:1751090/1‑100 (MQ=255)
cAGGACCATCTTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAAt < 2:1398171/100‑1 (MQ=255)
aGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATg < 1:192530/100‑1 (MQ=255)
aGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATg > 1:203126/1‑100 (MQ=255)
ggACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGt < 2:1131648/100‑1 (MQ=255)
gACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGtt > 2:726551/1‑100 (MQ=255)
ccATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGtttt > 1:65675/1‑100 (MQ=255)
aTCGTCGTCCACCGTAATGGTGATACTGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTcc < 2:1471653/100‑1 (MQ=255)
aTCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTcc > 2:1362688/1‑100 (MQ=255)
tcgtcgTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCa > 1:516240/1‑100 (MQ=255)
cgtcgtCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAg < 1:1118110/100‑1 (MQ=255)
tcgtcCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCTCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAgcg < 2:484373/100‑1 (MQ=255)
tcgtcCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAgcg < 1:1762967/100‑1 (MQ=255)
tcCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGTATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCAc < 1:1121831/100‑1 (MQ=255)
tcCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCAc > 2:1697201/1‑100 (MQ=255)
tcCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCAc < 1:715035/100‑1 (MQ=255)
ccACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGACCAATGTTTTCCAGCGCACt > 1:153929/1‑100 (MQ=255)
cACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAACATTACGAACAATGTTTTCCAGCGCACtt > 1:286064/1‑100 (MQ=255)
aCCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACttt > 1:247448/1‑100 (MQ=255)
aCCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACttt < 1:1745057/100‑1 (MQ=255)
aCCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACttt > 2:1434264/1‑100 (MQ=255)
ccGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTc > 1:209006/1‑100 (MQ=255)
ccGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTc > 2:617210/1‑100 (MQ=255)
gTAATGGTGATACCGTTTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTcc < 2:121419/99‑1 (MQ=255)
gTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCa < 1:1248569/100‑1 (MQ=255)
aTGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAggg < 2:1772647/100‑1 (MQ=255)
tGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGc < 1:109198/100‑1 (MQ=255)
gTGATACCGTCTTTATCTACCTCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGctt > 1:723865/1‑98 (MQ=255)
tGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGtt > 2:588737/1‑100 (MQ=255)
aCCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCg > 2:1004207/1‑98 (MQ=255)
aCCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGa > 1:1649832/1‑100 (MQ=255)
tATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTa > 1:848625/1‑100 (MQ=255)
aTCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTAc > 2:186758/1‑100 (MQ=255)
ccGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCgg < 1:1697188/100‑1 (MQ=255)
ccGCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCgg > 2:1292138/1‑100 (MQ=255)
gCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGcc < 2:848631/100‑1 (MQ=255)
gCAAAGCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGcc > 2:1472646/1‑100 (MQ=255)
gCCCACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGc < 2:203126/100‑1 (MQ=255)
cccACTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGcc < 1:617206/100‑1 (MQ=255)
aCTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAg > 1:434192/1‑100 (MQ=255)
cTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTAGGATTGCCGTACAACGGCAACGGCCCAgg > 2:580901/1‑100 (MQ=255)
cTTCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGCGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAgg > 2:1123043/1‑100 (MQ=255)
ttCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGccc < 1:1761474/96‑1 (MQ=255)
ttCAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGc < 2:643301/100‑1 (MQ=255)
cAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCgg > 2:1377472/1‑100 (MQ=255)
cAATCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCgg > 1:196187/1‑100 (MQ=255)
aaTCTTCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGTACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCggg < 2:482597/100‑1 (MQ=255)
cTTCGTATGGGAATAACGCAGGGCATTACGAACAATGTTTTCCAGCGCACTCTCCAGGGCGTTCGGGTTGCCGTACAGCGGCCACGGCCCAGGCGGGAAg < 2:672789/100‑1 (MQ=255)
ttCGTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCGGGAAGt > 1:1172647/1‑100 (MQ=255)
ttgtaggcgAATGACGCAGAGTATTACGAAAAATGTCTTCCAGCGCACTTTCCAGGGCGTTCGGATTGACGTACAGTGGCCACGGCCCAGGCGGGAAGtt < 1:1272669/92‑1 (MQ=255)
cGTATGGGAATGACGCAGAGCATTACGATCAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCGGGAAGTTa < 2:65675/100‑1 (MQ=255)
gTATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCGGGAAGTTaa > 1:217395/1‑100 (MQ=255)
tATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCGGGAAGTTAAc > 1:1483557/1‑100 (MQ=255)
tATGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCGGGAAGTTAAc < 1:588733/100‑1 (MQ=255)
aTGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCGGGAAGTTAACt < 2:516244/100‑1 (MQ=255)
tGGGAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCGGGAAGTTAACTg > 1:1152945/1‑100 (MQ=255)
ggAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCGGGAAGTTAACTGTc > 2:1122721/1‑100 (MQ=255)
ggAATGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCGGGAAGTTAAATGTc > 2:1295159/1‑100 (MQ=255)
aaTGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCGGGAAGTTAACTGTCaa < 1:1734813/100‑1 (MQ=255)
aaTGACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCAAGGACGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCGGGAAGTTAACTGTCaa > 1:1594373/1‑100 (MQ=255)
|
CGATCTTCCGGGCTAACGCCAGGACCATCGTCGTCCACCGTAATGGTGATACCGTCTTTATCTACCGCAAAGCCCACTTCAATCTTCGTATGGGAATAACGCAGAGCATTACGAACAATGTTTTCCAGCGCACTTTCCAGGGCGTTCGGATTGCCGTACAGCGGCCACGGCCCAGGCGGGAAGTTAACTGTCAA > NC_000913/4103789‑4103982
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
