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 F5 I102 R1
|
278 |
39.1 |
2251254 |
95.8% |
2156701 |
87.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
453,912 |
A→G |
E344G (GAA→GGA) |
clpX → |
ATP‑dependent protease ATP‑binding subunit ClpX |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 453,912 | 0 | A | G | 100.0%
| 179.4
/ NA
| 48 | E344G (GAA→GGA) | clpX | ATP‑dependent protease ATP‑binding subunit ClpX |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (25/23); total (25/23) |
ACTGAGCGAAGAAGCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGAAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCGTGGCC > NZ_CP009273/453829‑453995
|
aCTGAGCGAAGAAGCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTg > 1:229483/1‑91 (MQ=255)
tGAGCGAAGAAGCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGa < 1:471196/91‑1 (MQ=255)
gAGCGAAGAAGCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGAt > 2:139963/1‑91 (MQ=255)
gCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGt < 2:40473/77‑1 (MQ=255)
gCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGt > 1:40473/1‑77 (MQ=255)
gCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTcc > 2:636112/1‑91 (MQ=255)
gCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTcc > 1:1020266/1‑91 (MQ=255)
gCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTcc > 2:1054387/1‑91 (MQ=255)
ttCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGa < 1:139963/91‑1 (MQ=255)
cAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAgg < 1:871264/91‑1 (MQ=255)
cAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAgg < 2:397962/91‑1 (MQ=255)
aGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGgc > 1:131694/1‑91 (MQ=255)
aTCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGgcgc < 2:281198/91‑1 (MQ=255)
aTCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGgcgc < 1:300867/91‑1 (MQ=255)
aTCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGgcgc < 2:778706/91‑1 (MQ=255)
aTCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGgcgc > 2:839386/1‑91 (MQ=255)
tCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCt > 2:1070111/1‑91 (MQ=255)
ccTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTg < 1:238676/91‑1 (MQ=255)
ccTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTg < 2:20519/91‑1 (MQ=255)
cTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTgg > 2:332555/1‑91 (MQ=255)
tCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGa > 1:822816/1‑91 (MQ=255)
gagCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTa > 2:683885/1‑91 (MQ=255)
cGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGc < 2:679483/91‑1 (MQ=255)
aaaaaCGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTa < 1:314605/91‑1 (MQ=255)
aaaaaCGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTa < 1:1029218/91‑1 (MQ=255)
cTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGa > 1:1124/1‑91 (MQ=255)
aCCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATgg < 1:65634/91‑1 (MQ=255)
aCCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATgg < 1:999964/91‑1 (MQ=255)
ccAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGgc < 2:428735/91‑1 (MQ=255)
ccAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGgc < 2:733175/91‑1 (MQ=255)
gCAGTATCAGTCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGt < 2:760427/91‑1 (MQ=255)
gTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTaaa < 1:185965/91‑1 (MQ=255)
tATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGAATGCTATCGCTAAGAAAGCGATGGCGCGTaaaa > 2:1004157/1‑91 (MQ=255)
aTCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGAAGCTATCGCTAAGAAAGCGATGGCGCGTAAAAc > 1:1082617/1‑91 (MQ=255)
ggCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGt > 1:26654/1‑91 (MQ=255)
ggCGCTGGTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGt < 2:959637/91‑1 (MQ=255)
gcgcTGTGTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTg > 1:1044398/1‑91 (MQ=255)
cTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGccc > 1:747281/1‑91 (MQ=255)
cTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGccc > 2:448048/1‑91 (MQ=255)
cTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGccc > 2:522051/1‑91 (MQ=255)
cTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGccc > 1:692292/1‑91 (MQ=255)
cTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGccc > 2:839257/1‑91 (MQ=255)
cTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGccc > 2:889609/1‑91 (MQ=255)
tGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCg < 1:556954/91‑1 (MQ=255)
gTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCGt > 1:357792/1‑91 (MQ=255)
gTTTAATCTGGGAGGCGTGGATCTGCAAGTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCGt < 2:245396/91‑1 (MQ=255)
aaTCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCGTGGcc > 2:261139/1‑91 (MQ=255)
aaTCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCGTGGcc < 1:237438/91‑1 (MQ=255)
|
ACTGAGCGAAGAAGCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGAAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCGTGGCC > NZ_CP009273/453829‑453995
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CGTTGAATGAACTGAGCGAAGAAGCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGAAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCGTGGCCTGCGTTCCATCGTAGAA > NZ_CP009273/453819‑454012
|
CGTTGAATGAACTGAGCGAAGAAGCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTG > SRR3722125.234060/1‑101 (MQ=60)
TGAGCGAAGAAGCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTC < SRR3722125.481133/101‑1 (MQ=60)
GAGCGAAGAAGCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAActgt > SRR3722125.41188/1‑97 (MQ=60)
GAGCGAAGAAGCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCC > SRR3722125.1043120/1‑101 (MQ=60)
GCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGC > SRR3722125.134183/1‑101 (MQ=60)
ATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGA > SRR3722125.840856/1‑101 (MQ=60)
TTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGAT < SRR3722125.142625/101‑1 (MQ=60)
CAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGC < SRR3722125.890508/101‑1 (MQ=60)
gagatcatgcctagtctcgtgggctcggagatgtgtataagagacagGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTAT < SRR3722125.448121/54‑1 (MQ=60)
ATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTAT < SRR3722125.307022/101‑1 (MQ=60)
CCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCG < SRR3722125.243451/101‑1 (MQ=60)
GAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGA > SRR3722125.1161/1‑101 (MQ=60)
AAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGAT < SRR3722125.1052301/101‑1 (MQ=60)
AAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGAT < SRR3722125.321071/101‑1 (MQ=60)
ACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCctgtctcttatacacatctccgagcccacgagactaggcatgatctcgtatgccgtct > SRR3722125.11476/1‑43 (MQ=60)
ACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAAC < SRR3722125.66839/101‑1 (MQ=60)
ACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCCCGTAAAAC < SRR3722125.1022311/101‑1 (MQ=60)
ACCAAGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGAAGCTATCGCTAAGAAAGCGATGGCGCGTAAAAC > SRR3722125.1106994/1‑101 (MQ=60)
AGCAGTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGT > SRR3722125.27123/1‑101 (MQ=60)
GCAGTATCAGGCGCTGTGTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTG > SRR3722125.1067836/1‑101 (MQ=60)
GTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCC > SRR3722125.927232/1‑101 (MQ=60)
GTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCC < SRR3722125.189574/101‑1 (MQ=60)
GTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCC > SRR3722125.763409/1‑101 (MQ=60)
GTATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCC > SRR3722125.707229/1‑101 (MQ=60)
ATCAGGCGCTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCGT > SRR3722125.365290/1‑101 (MQ=60)
CTGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCGTGGCCTGCG > SRR3722125.1033178/1‑101 (MQ=60)
TGTTTAATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCGTGGCCTGCGT < SRR3722125.568875/101‑1 (MQ=60)
cagATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCGTGGCCTGCGTTCC < SRR3722125.679036/98‑1 (MQ=60)
AATCTGGGAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCGTGGCCTGCGTTCCAT < SRR3722125.242187/101‑1 (MQ=60)
GAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCGTGGCCTGCGTTCCATCGTAGAA < SRR3722125.197256/101‑1 (MQ=60)
GAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCGTGGCCTGCGTTCCATCGTAGAA < SRR3722125.995329/101‑1 (MQ=60)
|
CGTTGAATGAACTGAGCGAAGAAGCTCTGATTCAGATCCTCAAAGAGCCGAAAAACGCCCTGACCAAGCAGTATCAGGCGCTGTTTAATCTGGAAGGCGTGGATCTGGAATTCCGTGACGAGGCGCTGGATGCTATCGCTAAGAAAGCGATGGCGCGTAAAACCGGTGCCCGTGGCCTGCGTTCCATCGTAGAA > NZ_CP009273/453819‑454012
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
