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 F56 I1 R1
|
155 |
65.2 |
3164312 |
95.9% |
3034575 |
99.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,564,525 |
G→A |
M1M (ATG→ATA) † |
yffS → |
CPZ‑55 prophage; uncharacterized protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,564,525 | 0 | G | A | 97.1%
| 232.9
/ ‑2.1
| 69 | M1M (ATG→ATA) † | yffS | CPZ‑55 prophage; uncharacterized protein |
| Reads supporting (aligned to +/- strand): ref base G (1/1); new base A (39/28); total (40/29) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
GATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATGAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATGCGAGGAGATCGC > NC_000913/2564430‑2564620
|
gATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCATTGGATTCTATGAGATGGGAGATAAAAATCATAAGtt > 2:1543250/1‑100 (MQ=255)
gATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATGAGtt > 2:917881/1‑100 (MQ=255)
gATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGtt > 1:760036/1‑100 (MQ=255)
gATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGtt > 1:79104/1‑100 (MQ=255)
aTCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTa < 1:242888/100‑1 (MQ=255)
tCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTAc < 1:675524/100‑1 (MQ=255)
cTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACg > 2:675007/1‑100 (MQ=255)
tGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGa > 1:190104/1‑100 (MQ=255)
tGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGa < 1:415607/100‑1 (MQ=255)
tGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGa < 1:1392320/100‑1 (MQ=255)
gCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGaa < 1:1493198/100‑1 (MQ=255)
cAATATTCCCTTCCGTTACGCTTACCCTCCACCCATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCa > 1:512350/1‑100 (MQ=255)
cAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCa > 2:448935/1‑100 (MQ=255)
atTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAAt < 2:1439594/100‑1 (MQ=255)
tCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAAttt < 2:714927/100‑1 (MQ=255)
cccTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTg < 2:517927/100‑1 (MQ=255)
ccTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGc > 1:1538435/1‑100 (MQ=255)
tCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGAc > 2:554353/1‑100 (MQ=255)
ttACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATCAAAATCATAAGTTACGAAATCAAAATTTGCGACATcc < 2:848069/100‑1 (MQ=255)
tACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCt < 2:1284297/100‑1 (MQ=255)
aCGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTc > 2:1248622/1‑100 (MQ=255)
aCGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTc > 2:1547702/1‑100 (MQ=255)
cGCTTACCCCCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCa < 2:1207991/100‑1 (MQ=255)
gCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCaa > 1:512755/1‑100 (MQ=255)
cTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCaaa > 1:730540/1‑100 (MQ=255)
cgatcTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAgg < 1:1285729/96‑1 (MQ=255)
aCCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGgc > 2:367738/1‑100 (MQ=255)
cccTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGgcg > 1:905241/1‑100 (MQ=255)
cccTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGgcg > 1:712584/1‑100 (MQ=255)
cccTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGgcg > 1:492898/1‑100 (MQ=255)
cTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCt > 2:1147828/1‑100 (MQ=255)
ccaccaATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAggagatcg > 2:1285724/1‑94 (MQ=255)
ccaccaATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTg < 2:1456429/99‑1 (MQ=255)
ccaccaATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGc < 2:164470/100‑1 (MQ=255)
ccaATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGAt > 2:800349/1‑100 (MQ=255)
caATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATg < 2:760034/100‑1 (MQ=255)
tACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGaa > 2:1303698/1‑100 (MQ=255)
cgcgTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAgg < 2:1280818/100‑1 (MQ=255)
cgcgTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAgg > 1:1453437/1‑100 (MQ=255)
cgTGTTAACCTCCCAATGGGTTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGAc > 1:433028/1‑100 (MQ=255)
gtTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAat < 1:930/100‑1 (MQ=255)
aaCCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAAtata > 1:644044/1‑100 (MQ=255)
aaCCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAAtata < 2:1357566/100‑1 (MQ=255)
cTCCCAATGGATTCTATGAGATCGGAGATAAAAATCATAAGTTACGCAATCAAAATTTGCGACATCCTCAAACGCGCTGCGATGGAAGGACATTATAAg > 2:1348213/1‑99 (MQ=255)
cAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGgcgc > 2:56472/1‑100 (MQ=255)
cAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGgcgc > 1:1392160/1‑100 (MQ=255)
cAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGgcg > 2:367990/1‑99 (MQ=255)
cAATGGATTCTATGAGATGGCAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGgcgc > 2:965657/1‑100 (MQ=255)
aaTGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCt > 1:1161535/1‑100 (MQ=255)
aTGGATTCTATTAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAAGTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTc < 2:997703/100‑1 (MQ=255)
ggATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCaa < 2:644042/100‑1 (MQ=255)
aTGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGGCAATATAAGGGCGCTCAACGTgggg > 1:1480695/1‑100 (MQ=255)
tGAGATGGGAGATAAAAATCATAAGTTACGATATCAAGATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGc < 2:1065696/100‑1 (MQ=255)
tGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTgggg > 2:1084223/1‑99 (MQ=255)
tGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGc < 2:1501272/100‑1 (MQ=255)
gagaTGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGcc < 2:427432/100‑1 (MQ=255)
gagaTGGGAGATAAAAATCATAAGCTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCCGCGATGGAAGGACAATATAAGGGCGCGCAACGTGGGGcc > 2:1473891/1‑100 (MQ=255)
agaTGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCa < 1:1341103/100‑1 (MQ=255)
ggAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAACTGc > 1:120730/1‑100 (MQ=255)
agaTAAAAATCATAAGTTACGAAATCAAAATTTGAGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATg > 2:717759/1‑97 (MQ=255)
gaTAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATGCgag < 1:1309811/100‑1 (MQ=255)
aTAAAAATCATGAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATGCgagg < 1:3704/100‑1 (MQ=255)
aTAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGTGCTCAACGTGGGGCCAAATGCgagg < 1:186938/100‑1 (MQ=255)
aTAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCACTCAACGTGGGGCCAAATGCgagg < 2:57406/100‑1 (MQ=255)
tAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATGCgagga > 2:873476/1‑100 (MQ=255)
aaaaaTCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATGCgaggag > 2:933430/1‑100 (MQ=255)
aaaaaTCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATGCgaggag > 2:1155707/1‑100 (MQ=255)
aaaTCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATGCGAGGAGAt > 1:1286073/1‑100 (MQ=255)
tCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATGCGAGGAGATCGc < 1:448936/100‑1 (MQ=255)
|
GATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATGAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATGCGAGGAGATCGC > NC_000913/2564430‑2564620
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
