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 |
|
A14 F1 I1 R1
|
770 |
68.5 |
3470224 |
91.7% |
3182195 |
103.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,673,789 |
T→C |
intergenic (‑288/‑124) |
mdtJ ← / → tqsA |
multidrug efflux system transporter/pheromone AI‑2 transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,673,789 | 0 | T | C | 86.8%
| 190.4
/ 11.2
| 68 | intergenic (‑288/‑124) | mdtJ/tqsA | multidrug efflux system transporter/pheromone AI‑2 transporter |
| Reads supporting (aligned to +/- strand): ref base T (4/5); new base C (32/27); total (36/32) |
| Fisher's exact test for biased strand distribution p-value = 7.25e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATGAGGTACGAAGATGGGTAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGTATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACATTATTATTAGCAAAGGAAGAAAAAACGGGGACAAGCATGGCAAA > NC_000913/1673655‑1673920
|
aTGAGGTACGAAGATGGGTAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCa > 2:863829/1‑139 (MQ=255)
gAGGTACGAAGATGGGTAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATa > 1:1659167/1‑139 (MQ=255)
gATGGGTAACTGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAAt < 2:1021660/139‑1 (MQ=255)
aTGGGTAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAAtt > 2:1699998/1‑139 (MQ=255)
gTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGTATCATAGCTTAAGAATTAACTCAAAat > 2:1435056/1‑139 (MQ=255)
aaTAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTc < 2:1659167/139‑1 (MQ=255)
tAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCAc < 1:863829/139‑1 (MQ=255)
aaCGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGTATCATAGCTTAAGAATTAACTCAAAATATTTTCAct > 1:721043/1‑139 (MQ=255)
cGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGTATCa > 1:662430/1‑105 (MQ=255)
cGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGTATCa < 2:662430/105‑1 (MQ=255)
cTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACt > 2:738949/1‑118 (MQ=255)
cTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACt < 1:738949/118‑1 (MQ=255)
aaaTTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGTATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAg < 1:1435056/139‑1 (MQ=255)
tGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAg < 2:86332/135‑1 (MQ=255)
tGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAg > 1:86332/1‑135 (MQ=255)
ccATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCActtctt < 1:285547/124‑1 (MQ=255)
ccATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCActtctt > 2:285547/1‑124 (MQ=255)
cATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGa > 2:1515448/1‑139 (MQ=255)
atatTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGAtttt > 2:1037561/1‑139 (MQ=255)
ttACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGt < 1:1699998/139‑1 (MQ=255)
aCAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGTATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTa < 2:721043/139‑1 (MQ=255)
cAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTat < 1:1515448/139‑1 (MQ=255)
aTCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCt < 1:736194/77‑1 (MQ=255)
aTCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCt > 2:736194/1‑77 (MQ=255)
aTCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTc < 1:1685965/101‑1 (MQ=255)
aTCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTc > 2:1685965/1‑101 (MQ=255)
aTCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTAtgatga > 2:769817/1‑139 (MQ=255)
tCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGAc > 2:1712828/1‑139 (MQ=255)
aGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTa < 1:938533/73‑1 (MQ=255)
aGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTa > 2:938533/1‑73 (MQ=255)
tgtTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGGTGACGGAGCGa > 1:1129319/1‑139 (MQ=255)
ttGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGTATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTat < 2:1692796/124‑1 (MQ=255)
ttGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGTATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTat > 1:1692796/1‑124 (MQ=255)
ttGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGaaa > 1:1023112/1‑139 (MQ=255)
tGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGt > 2:263145/1‑109 (MQ=255)
tGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGt < 1:263145/109‑1 (MQ=255)
tGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGaaaa < 1:1712828/139‑1 (MQ=255)
cGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCAt < 2:485921/52‑1 (MQ=255)
cGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCAt > 1:485921/1‑52 (MQ=255)
cGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTc < 1:1300067/83‑1 (MQ=255)
cGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTc > 2:1300067/1‑83 (MQ=255)
cGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACatt > 2:252101/1‑139 (MQ=255)
cGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACa > 1:692803/1‑137 (MQ=255)
cGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACa < 2:692803/137‑1 (MQ=255)
aTCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACattatta < 2:1129319/139‑1 (MQ=255)
gatgatAATTGTCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACATTATTATTAGCa < 1:252101/139‑1 (MQ=255)
tCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTc < 2:717168/62‑1 (MQ=255)
tCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTc > 1:717168/1‑62 (MQ=255)
tCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAg > 1:519786/1‑105 (MQ=255)
tCCTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAg < 2:519786/105‑1 (MQ=255)
cTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTCACTCAAAATAtttt > 2:1224423/1‑59 (MQ=255)
cTCGGTAGTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATAtttt < 1:1224423/59‑1 (MQ=255)
gTTGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACATTATTATTAGCAAAGGAAGAAAAAACGGGGAc < 1:769817/139‑1 (MQ=255)
ttGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGAt < 1:1318902/76‑1 (MQ=255)
ttGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGAt > 2:1318902/1‑76 (MQ=255)
ttGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACATTATTATTAGCAAAGGAAGAAAAAACgggg > 2:713910/1‑136 (MQ=255)
ttGAACACGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACATTATTATTAGCAAAGGAAGAAAAAACgggg < 1:713910/136‑1 (MQ=255)
cacGCCTGATTTGCATCATAGCTTAAGAATTAACTc < 2:441375/36‑1 (MQ=255)
cacGCCTGATTTGCATCATAGCTTAAGAATTAACTc > 1:441375/1‑36 (MQ=255)
cGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACa > 1:172960/1‑99 (MQ=255)
cGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACa < 2:172960/99‑1 (MQ=255)
cGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACATTATTATTAGCAAAGGAAGAAAAAACGGGGACAAGCATgg > 1:1710625/1‑139 (MQ=255)
cGCCTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACATTATTATTAGCAAAGGAAGAAAAAACGGGGACAAGCATgg > 2:955369/1‑139 (MQ=255)
ccTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACATTATTATTAGCAAAGGAAGAAAAAACGGGGACAAGCATGGCa > 2:1581768/1‑139 (MQ=255)
cTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACATTATTATTAGCAAAGGAAGAAAAAAc > 2:786186/1‑122 (MQ=255)
cTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACATTATTATTAGCAAAGGAAGAAAAAAc < 1:786186/122‑1 (MQ=255)
cTGATTTGCATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACATTATTATTAGAAAAGGAAGAAAAAACGGGGACAAGCATGGCaa > 2:386023/1‑139 (MQ=255)
tGATTTGTATCATAGCTTAAGAATTATCTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACATTATTATTAGCAAAGGAAGAAAAAACGGGGACAAGCATGGCaaa < 2:1023112/139‑1 (MQ=255)
|
ATGAGGTACGAAGATGGGTAAATGTAGAAAATAACGTCCTGAACAAATTGTCCATAATATTACAATTATCCGCAGTGTTGCTTCTCGTCATCGCGGATGATAATTGTCCTCGGTAGTTGAACACGCCTGATTTGTATCATAGCTTAAGAATTAACTCAAAATATTTTCACTTCTTTACCTGAGCGGTTTGATTTTCGTTATGATGACGGAGCGAAAAAGACATTATTATTAGCAAAGGAAGAAAAAACGGGGACAAGCATGGCAAA > NC_000913/1673655‑1673920
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
