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 |
|
A1 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,916,386 |
G→A |
E892K (GAA→AAA) |
barA → |
hybrid sensory histidine kinase, in two‑component regulatory system with UvrY |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,916,386 | 0 | G | A | 87.6%
| 244.7
/ 22.8
| 89 | E892K (GAA→AAA) | barA | hybrid sensory histidine kinase, in two‑component regulatory system with UvrY |
| Reads supporting (aligned to +/- strand): ref base G (11/0); new base A (43/35); total (54/35) |
| Fisher's exact test for biased strand distribution p-value = 2.90e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
TAGCGGTGTGCCACGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAGAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATGGA > W3110S.gb/2916319‑2916432
|
taGCGGTGTGCCACGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAaaaaag < 1:2652200/71‑1 (MQ=255)
taGCGGTGTGCCACGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAaaaaag < 1:3796176/71‑1 (MQ=255)
taGCGGTGTGCCACGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAaaaaag < 1:2391056/71‑1 (MQ=255)
taGCGGTGTGCCACGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAaaaaag < 1:90143/71‑1 (MQ=255)
gCGGTGTGCCACGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAaaaaag > 1:2764182/1‑69 (MQ=255)
gCGGTGTGCCACGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAaaaaag > 1:2916467/1‑69 (MQ=255)
gCGGTGTGCCACGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAaaaaag > 1:3294502/1‑69 (MQ=255)
gCGGTGTGCCACGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAaaaaag > 1:4097073/1‑69 (MQ=255)
gCGGTGTGCCACGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAaaaaag > 1:4079039/1‑69 (MQ=255)
gCGGTGTGCCACGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAaaaaag > 1:2484302/1‑69 (MQ=255)
gCGGTGTGCCACGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAaaaaag > 1:3155807/1‑69 (MQ=255)
ccACGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTgg > 1:2761361/1‑70 (MQ=255)
aCGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAAc < 1:4017359/71‑1 (MQ=255)
aCGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAAc < 1:2015982/71‑1 (MQ=255)
aTCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGAt > 1:1813333/1‑53 (MQ=255)
aTCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGctgctg > 1:2877148/1‑71 (MQ=255)
aTCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGctgctg > 1:1672270/1‑71 (MQ=255)
aTCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGctgctg > 1:1618317/1‑71 (MQ=255)
aTCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGctgctg > 1:1603758/1‑71 (MQ=255)
aTCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGctgctg > 1:2619945/1‑71 (MQ=255)
aTCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGctgctg > 1:1247546/1‑71 (MQ=255)
aTCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGctgctg > 1:4080987/1‑71 (MQ=255)
ctctGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTgg > 1:1887188/1‑70 (MQ=255)
ctctGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTgg > 1:4100914/1‑70 (MQ=255)
ctctGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTgg > 1:3240644/1‑70 (MQ=255)
ctctGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTgg > 1:3407814/1‑70 (MQ=255)
tGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTgg < 1:738112/67‑1 (MQ=255)
tGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTgg < 1:37255/67‑1 (MQ=255)
tGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTgg < 1:796777/67‑1 (MQ=255)
tGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGa < 1:3925294/68‑1 (MQ=255)
tGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGa < 1:489059/68‑1 (MQ=255)
tGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGa < 1:3275801/68‑1 (MQ=255)
tGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGa < 1:1911387/68‑1 (MQ=255)
tGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGa < 1:2539256/68‑1 (MQ=255)
tGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACt > 1:1259557/1‑71 (MQ=255)
ccAACTGATCGAACAAGAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACt < 1:93907/69‑1 (MQ=255)
ccAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACt < 1:3324990/69‑1 (MQ=255)
ccAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACt < 1:3329689/69‑1 (MQ=255)
ccAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACt < 1:316910/69‑1 (MQ=255)
ccAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACt < 1:2676879/69‑1 (MQ=255)
ccAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACt < 1:2738976/69‑1 (MQ=255)
ccAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGt > 1:1191124/1‑71 (MQ=255)
ccAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGt > 1:1216202/1‑71 (MQ=255)
ccAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGt > 1:401498/1‑71 (MQ=255)
ccAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGt > 1:3539403/1‑71 (MQ=255)
ccAACTGATCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACAGGAGCTGCTGGAACTGt > 1:3978429/1‑71 (MQ=255)
aTCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGAc > 1:3240650/1‑69 (MQ=255)
aTCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGAc > 1:3273665/1‑69 (MQ=255)
aTCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACga < 1:3745524/71‑1 (MQ=255)
aTCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACga < 1:4107091/71‑1 (MQ=255)
aTCGAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACga < 1:1715915/71‑1 (MQ=255)
gAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACga < 1:2700372/68‑1 (MQ=255)
gAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACga < 1:1388787/68‑1 (MQ=255)
gAACAACAGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACga < 1:3306962/68‑1 (MQ=255)
aacaacAGCTACGTAGCTGTACTAAAAAAGAAGATTTgg < 1:3886567/39‑1 (MQ=38)
aacaacAGCTACGTAGCGGTACTAAAAAAGAAGATTTgg < 1:3108568/39‑1 (MQ=255)
aacaacAGCTACGTAGCGGTACTAAAAAAGAAGATTTgg < 1:2158939/39‑1 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGTAACCGGAGCTGCTGGAACTGTTGGACgaga > 1:839903/1‑68 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAgc > 1:3100323/1‑47 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACgaga > 1:4028522/1‑68 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACgaga > 1:4008324/1‑68 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACgaga > 1:3517300/1‑68 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACgaga > 1:660924/1‑68 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACgaga > 1:2736126/1‑68 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACgaga > 1:3055471/1‑68 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACgaga > 1:21136/1‑68 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACgaga > 1:3110537/1‑68 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACgaga > 1:3195184/1‑68 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACgag > 1:1745443/1‑67 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATg > 1:1108519/1‑70 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATg > 1:278334/1‑70 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATg > 1:2812107/1‑70 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATg > 1:2833865/1‑70 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATg > 1:593776/1‑70 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATg > 1:800699/1‑70 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATg > 1:3678738/1‑70 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATg > 1:3612950/1‑70 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATg > 1:1969210/1‑70 (MQ=255)
acaacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATg > 1:1834413/1‑70 (MQ=255)
caacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATGGa < 1:767130/71‑1 (MQ=255)
caacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATGGa < 1:2471094/71‑1 (MQ=255)
caacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATGGa < 1:784575/71‑1 (MQ=255)
caacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATGGa < 1:3583327/71‑1 (MQ=255)
caacaGCTACGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATGGa < 1:3482085/71‑1 (MQ=255)
aCGTAGCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACga < 1:336422/57‑1 (MQ=255)
gCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATg < 1:3443497/56‑1 (MQ=255)
gCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATg < 1:460768/56‑1 (MQ=255)
gCGGTACTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATg < 1:846937/56‑1 (MQ=255)
cTAAAAAAGAAGATTTGGAACCGGAGCTGCTGGAACt < 1:3363915/37‑1 (MQ=255)
aaaGAAGAAGATTTGGAACCGGAGCTGCTGGAACTGt > 1:961140/1‑37 (MQ=255)
aaaGAAGAAGATTTGGAACCGGAGCTGCTGGAACTGt > 1:485577/1‑37 (MQ=255)
aaaGAAGAAGATTTGGAACCGGAGCTGCTGGAACTGt > 1:480753/1‑37 (MQ=255)
aaaGAAGAAGATTTGGAACCGGAGCTGCTGGAACTGt > 1:3606911/1‑37 (MQ=255)
aaaGAAGAAGATTTGGAACCGGAGCTGCTGGAACTGt > 1:3501110/1‑37 (MQ=255)
aaaGAAGAAGATTTGGAACCGGAGCTGCTGGAACTGt > 1:3407996/1‑37 (MQ=255)
aaaGAAGAAGATTTGGAACCGGAGCTGCTGGAACTGt > 1:261091/1‑37 (MQ=255)
aaaGAAGAAGATTTGGAACCGGAGCTGCTGGAACTGt > 1:2350297/1‑37 (MQ=255)
aaaGAAGAAGATTTGGAACCGGAGCTGCTGGAACTGt > 1:1884860/1‑37 (MQ=255)
aaaGAAGAAGATTTGGAACCGGAGCTGCTGGAACTGt > 1:1252903/1‑37 (MQ=255)
aaaGAAGAAGATTTGGAACCGGAGCTGCTGGAACTGt > 1:1140289/1‑37 (MQ=255)
|
TAGCGGTGTGCCACGTATGAAGAATCTCTGCCAACTGATCGAACAACAGCTACGTAGCGGTACTAAAGAAGAAGATTTGGAACCGGAGCTGCTGGAACTGTTGGACGAGATGGA > W3110S.gb/2916319‑2916432
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
