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 |
|
A87 F1 I1 R1
|
13 |
46.2 |
2986023 |
95.8% |
2860610 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,404,030 |
T→A |
F13I (TTC→ATC) |
rpsR → |
30S ribosomal protein S18 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,404,030 | 0 | T | A | 98.6%
| 273.8
/ ‑3.1
| 71 | F13I (TTC→ATC) | rpsR | 30S ribosomal protein S18 |
| Reads supporting (aligned to +/- strand): ref base T (1/0); new base A (36/34); total (37/34) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.28e-01 |
GAGCAGATTGAATTGATAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCG > REL606/4403957‑4404102
|
gAGCAGATTGAATTGATAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATc < 1:39883/76‑1 (MQ=255)
gAGCAGATTGAATTGATAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATc > 1:603880/1‑76 (MQ=255)
aGCAGATTGAATTGATAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCa > 2:473238/1‑76 (MQ=255)
gCAGATTGAATTGATAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCAc < 1:491897/76‑1 (MQ=255)
cAGATTGAATTGATAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCAcc > 2:581200/1‑76 (MQ=255)
cAGATTGAATTGATAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCAcc > 1:734763/1‑76 (MQ=255)
aGATTGAATTGATAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACcg > 1:1231420/1‑76 (MQ=255)
gATTGAATTGATAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACcgc < 2:897981/76‑1 (MQ=255)
ttgaattgaTAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCgg > 2:1118333/1‑76 (MQ=255)
ttgaattgaTAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCgg > 1:1481834/1‑76 (MQ=255)
ttgaattgaTAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCgg > 1:110071/1‑76 (MQ=255)
ttgaattgaTAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCgg > 1:992651/1‑76 (MQ=255)
ttgaattgaTAGATGCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCgg < 1:138196/76‑1 (MQ=255)
tgaattgaTAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGa > 1:753380/1‑76 (MQ=255)
tgaattgaTAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGa > 1:373358/1‑76 (MQ=255)
agaattgaTAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGa > 1:824880/2‑76 (MQ=255)
gaattgaTAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGaa > 1:672366/1‑76 (MQ=255)
gaTAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGt < 1:93635/76‑1 (MQ=255)
aTAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGtt > 2:1443480/1‑76 (MQ=255)
aTAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGtt < 1:390903/76‑1 (MQ=255)
gATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCaa < 1:56016/76‑1 (MQ=255)
gATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCaa > 2:721565/1‑76 (MQ=255)
gATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCaa < 2:94617/76‑1 (MQ=255)
aTTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAag < 2:1069825/76‑1 (MQ=255)
aTTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAag > 1:948311/1‑76 (MQ=255)
aTTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAag > 1:258196/1‑76 (MQ=255)
aTTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAag < 1:1282521/76‑1 (MQ=255)
aTTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAag < 2:894258/76‑1 (MQ=255)
cTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAgaga < 2:1208829/76‑1 (MQ=255)
gagaCTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCg < 1:284785/76‑1 (MQ=255)
agaCTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGa < 1:369745/76‑1 (MQ=255)
aCTAGCCATATGGCACGTTATTTCCGTCGTTGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACt > 1:912656/1‑76 (MQ=255)
aCTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACt < 2:436052/76‑1 (MQ=255)
aCTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACt < 1:608684/76‑1 (MQ=255)
aCTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACt < 2:1132839/76‑1 (MQ=255)
cTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACta > 2:330867/1‑76 (MQ=255)
cTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACta < 1:1097300/76‑1 (MQ=255)
tAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACtat > 2:785336/1‑76 (MQ=255)
tAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACtat > 2:114569/1‑76 (MQ=255)
aGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACtata > 1:682833/1‑76 (MQ=255)
aGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACtata > 1:1237564/1‑76 (MQ=255)
gCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATaa < 2:1427227/76‑1 (MQ=255)
ccATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATaaa < 2:1051327/76‑1 (MQ=255)
cATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAg > 1:1445644/1‑76 (MQ=255)
cATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAg > 1:340728/1‑76 (MQ=255)
atGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGata < 1:1082029/76‑1 (MQ=255)
tGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGttat < 2:982411/76‑1 (MQ=255)
gCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCg > 1:90491/1‑76 (MQ=255)
aCGTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCt < 1:623090/76‑1 (MQ=255)
ctttATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTa > 1:1083278/3‑76 (MQ=255)
gTTATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTAc < 2:505587/76‑1 (MQ=255)
ttATTTCCGTCGTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACg < 2:570778/76‑1 (MQ=255)
ccGTCTTCGCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGaaa < 2:887768/76‑1 (MQ=255)
ccGTCGTCGCAAGTTCTGCCGTATCTCCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGaaa < 1:1335067/76‑1 (MQ=255)
cgtcgCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACt > 1:212445/1‑76 (MQ=255)
cgtcgCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACt < 1:715918/76‑1 (MQ=255)
cgCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACa < 2:1095714/76‑1 (MQ=255)
gCAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACAt < 1:393068/76‑1 (MQ=255)
gCAAGTTCTGCCGATTCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACAt > 1:997055/1‑76 (MQ=255)
cAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATc < 2:569261/76‑1 (MQ=255)
cAAGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATc > 1:356738/1‑76 (MQ=255)
aaGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCa < 1:128059/76‑1 (MQ=255)
aGTTCTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCAc > 1:566970/1‑76 (MQ=255)
cTGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGaa > 1:917148/1‑76 (MQ=255)
tGCTGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGaaa < 2:213727/76‑1 (MQ=255)
tGCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGaaa > 2:956271/1‑76 (MQ=255)
gCCGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAg < 2:1481326/76‑1 (MQ=255)
ccGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGc > 2:416713/1‑76 (MQ=255)
cGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCg > 2:1189482/1‑76 (MQ=255)
cGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCg < 1:742390/76‑1 (MQ=255)
cGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCg < 2:74372/76‑1 (MQ=255)
cGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCg > 1:916965/1‑76 (MQ=255)
cGTATCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCg > 2:1211091/1‑76 (MQ=255)
|
GAGCAGATTGAATTGATAGATTCTGGAGACTAGCCATATGGCACGTTATTTCCGTCGTCGCAAGTTCTGCCGTTTCACCGCGGAAGGCGTTCAAGAGATCGACTATAAAGATATCGCTACGCTGAAAAACTACATCACCGAAAGCG > REL606/4403957‑4404102
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
