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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,052,195 |
C→T |
46.9% |
R92R (CGC→CGT) |
htrG → |
predicted signal transduction protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,052,195 | 0 | C | T | 46.9%
| 9.3
/ 69.2
| 83 | R92R (CGC→CGT) | htrG | predicted signal transduction protein |
| Reads supporting (aligned to +/- strand): ref base C (29/15); new base T (20/19); total (49/34) |
| Fisher's exact test for biased strand distribution p-value = 1.89e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.37e-01 |
GAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACTCACCAATATCGATAACA > minE/2052129‑2052262
|
gAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTc > 1:1854520/1‑69 (MQ=255)
gAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTc > 1:552795/1‑69 (MQ=255)
gAAAGACAGCTCTGGCCGTACCG‑CTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTcc > 1:994272/1‑69 (MQ=255)
gACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCgt > 1:176999/1‑69 (MQ=255)
gACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCgt > 1:2093513/1‑69 (MQ=255)
gACAGCTCTGGCCGTACCGCCTGGATCCCGGTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCgt > 1:474715/1‑69 (MQ=255)
aCAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCgtg > 1:2047982/1‑69 (MQ=255)
aCAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCgt > 1:921722/1‑68 (MQ=255)
tctGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCgtgt > 1:401198/1‑65 (MQ=255)
tctGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCgtgt > 1:1751437/1‑65 (MQ=255)
gTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTg > 1:837957/1‑68 (MQ=255)
aCCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGaa < 1:422412/69‑1 (MQ=255)
aCCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGaa < 1:1358895/69‑1 (MQ=255)
aCCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGaa < 1:2466156/69‑1 (MQ=255)
cccGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCaa > 1:387603/1‑69 (MQ=255)
cccGTTGAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCaa < 1:610702/69‑1 (MQ=255)
cccGTTGAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCaa < 1:2908005/69‑1 (MQ=255)
cccGTTGAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCaa < 1:2206296/69‑1 (MQ=255)
cccGTTGAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCaa < 1:177103/69‑1 (MQ=255)
cccGTTGAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCaa < 1:2856554/69‑1 (MQ=255)
cccGTTGAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCaa < 1:1290993/69‑1 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCaaaa < 1:1156252/68‑1 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCaaaa < 1:578531/68‑1 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCaaa > 1:1545274/1‑67 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAAc > 1:1838190/1‑69 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAAc > 1:889198/1‑69 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAAc > 1:2760166/1‑69 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAAc > 1:3346484/1‑69 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAAc > 1:3369797/1‑69 (MQ=255)
gTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAAc > 1:51066/1‑69 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:3062858/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:3271823/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:3314006/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:358589/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:2410528/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:546675/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:1166628/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:1608085/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:649651/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:1963080/45‑1 (MQ=255)
gAAACAACTTAGCACGGAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:992142/45‑1 (MQ=255)
gAAACAACTTAGCACGGAACCAAGCCTGCGTTCCCGTGTGCCAGa < 1:3139735/45‑1 (MQ=255)
gAAACAACTTAGCACGCAGCCAAGCCTGCGTTCCCGTGTGCCAGa < 1:1727733/45‑1 (MQ=255)
aCTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATaaa < 1:445900/66‑1 (MQ=255)
aCTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt < 1:472195/68‑1 (MQ=255)
aCTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt < 1:3286648/68‑1 (MQ=255)
aCTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt < 1:1993609/68‑1 (MQ=255)
aCTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt < 1:209767/68‑1 (MQ=255)
aCTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt < 1:2118096/68‑1 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAAt > 1:1916895/2‑40 (MQ=38)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTTACCGATAAACTCa > 1:144118/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTc > 1:2690511/2‑67 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:447361/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:1074637/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:1091214/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:885077/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:733284/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:2072938/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:584302/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:1228668/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:472019/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:125483/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:1398410/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:2547223/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:3434548/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:3427648/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:3373493/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:2737829/2‑68 (MQ=255)
ggAGCCAAGCCTGCGTTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACGCTGACCGATAAACTCa > 1:3301968/2‑68 (MQ=255)
gAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACTCAcc < 1:3003128/69‑1 (MQ=255)
aGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACTCACCAATATc > 1:839432/1‑69 (MQ=255)
aGCCTGCGCTCCCGTGTGCC‑‑ATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACTCACCAATATCg > 1:1218929/1‑68 (MQ=255)
ccTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt > 1:3044187/1‑57 (MQ=255)
ccTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt > 1:1682222/1‑57 (MQ=255)
ccTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt > 1:3098864/1‑57 (MQ=255)
ccTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt > 1:3121298/1‑57 (MQ=255)
ccTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt > 1:85713/1‑57 (MQ=255)
ccTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt > 1:2847302/1‑57 (MQ=255)
ccTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt > 1:2017275/1‑57 (MQ=255)
ccTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACt > 1:1470837/1‑57 (MQ=255)
cTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACTCACCAATATCGAt < 1:2742606/69‑1 (MQ=255)
cTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACTCACCAATATCGAt < 1:1497412/69‑1 (MQ=255)
cTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACTCACCAATATCGAt < 1:457634/69‑1 (MQ=255)
cTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACTCACCAATATCGATAaca < 1:1014060/68‑1 (MQ=255)
cTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACTCACCAATATCGATAaca < 1:293917/68‑1 (MQ=255)
cTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACTCACCAATATCGATAaca < 1:2498641/68‑1 (MQ=255)
cTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACTCACCAATATCGATAaca < 1:2544401/68‑1 (MQ=255)
|
GAAAGACAGCTCTGGCCGTACCGCCTGGATCCCGTTGAAACAACTTAGCACTGAGCCAAGCCTGCGCTCCCGTGTGCCAGATCTGGAAAATCAGGTCAAAACCCTGACCGATAAACTCACCAATATCGATAACA > minE/2052129‑2052262
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
