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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
982,620 |
C→A |
28.5% |
G22G (GGC→GGA) |
ydfA → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 982,620 | 0 | C | A | 28.5%
| 164.1
/ 49.3
| 84 | G22G (GGC→GGA) | ydfA | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (30/30); new base A (11/13); total (41/43) |
| Fisher's exact test for biased strand distribution p-value = 8.11e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.44e-01 |
CAGCATGGATACTATCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTAAAACCGAAAATGGTGCCCGTCGCTGGCTG > minE/982551‑982689
|
cAGCATGGATACTATCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGc > 1:144578/1‑70 (MQ=255)
cAGCATGGATACTATCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCa > 1:1624072/1‑71 (MQ=255)
aGCATGGATACTATCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCAc > 1:3164697/1‑71 (MQ=255)
aGCATGGATACTATCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCAc > 1:470296/1‑71 (MQ=255)
gCATGGATACTATCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACg < 1:1947297/71‑1 (MQ=255)
aTGGATACTATCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACAAGGACGGCACGtt < 1:3106509/71‑1 (MQ=255)
ggATACTATCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCa > 1:112889/1‑71 (MQ=255)
ggATACTATCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCa > 1:736647/1‑71 (MQ=255)
aTACTATCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCAcc < 1:2350193/71‑1 (MQ=255)
aaaaTCGACCTCGGCAACAACGAATCCCTGGTGTGCGGCGTGTTCCCCAACCAGGATGGAACGTTCACTGc > 1:3550938/4‑71 (MQ=255)
aaaaTCGACCTCGGCAACAACGAATCCCTGGTGTGCGGCGTGTTCCCCAACCAGGATGGAACGTTCACTGc > 1:3427573/4‑71 (MQ=255)
aaaaTCGACCTCGGCAACAACGAATCCCTGGTGTGCGGCGTGTTCCCCAACCAGGATGGAACGTTCACTGc > 1:3303811/4‑71 (MQ=255)
aCTATCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCg > 1:398446/1‑70 (MQ=255)
aCTATCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCg > 1:3766279/1‑70 (MQ=255)
cTATCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGc < 1:743707/70‑1 (MQ=255)
cTATCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCa < 1:1231933/71‑1 (MQ=255)
tCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCAcc < 1:932822/65‑1 (MQ=255)
tCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCa < 1:2412675/68‑1 (MQ=255)
tCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAAt > 1:3322947/1‑70 (MQ=255)
cGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATg < 1:52514/70‑1 (MQ=255)
gATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCaa > 1:2157967/1‑67 (MQ=255)
gATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGAc > 1:3867343/1‑71 (MQ=255)
aTCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACg > 1:2787413/1‑71 (MQ=255)
ctcggCAACAACGAATCCCTGGTGTGCGGCGTGTTCCCCAACCAGGATGGAACGTTCACTGACATGACGta > 1:1891871/4‑71 (MQ=255)
cTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGta > 1:2786558/1‑71 (MQ=255)
ggCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACg < 1:1468420/66‑1 (MQ=255)
gCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATAcc < 1:1824892/71‑1 (MQ=255)
aacaacGAATCCCTGGTGTGCGGCGTGTTCCCCAACCAGGATGGAACGTTCACTGCCATGACGTATACCaa < 1:293877/71‑1 (MQ=255)
aacaacGAATCCCTGGTGTGCGGCGTGTTCCCCAACCAGGATGGAACGTTCACTGCCATGACGTATACCaa < 1:1500612/71‑1 (MQ=255)
acaacGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGc < 1:2874776/55‑1 (MQ=255)
acaacGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCaa > 1:226656/1‑70 (MQ=255)
acaacGAATCCCTGGTGTGCGGCGTGTTCCCCAACCAGGACGGAACGTTCACTGCCATGACGTATACCaaa < 1:1574190/71‑1 (MQ=255)
caacGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCaa > 1:2300351/1‑69 (MQ=255)
caacGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCAAGTTCa > 1:2322837/1‑50 (MQ=255)
aacGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCg > 1:2506737/1‑52 (MQ=255)
acGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATg < 1:3672106/56‑1 (MQ=255)
acGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGc < 1:2943475/71‑1 (MQ=255)
acGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGAAGGCACGTTCACCGCAATGACGTATACCAAAAGc < 1:499196/71‑1 (MQ=255)
acGAATCCCTGGTGTGCGGCGTGTTCCCCAACCAGGATGGAACGTTCACTGCCATGACGTATACCAAAAGc < 1:2543305/71‑1 (MQ=255)
cGAATCCCTGGTGTGCGGCGTGTTCCCCAACCAGGATGGAACGTTCGCTGCCATGACGTATACCAAAAGCa < 1:744226/71‑1 (MQ=255)
cGAATCCCTGGTGTGCGGCGTGTTCCCCAACCAGGATGGAACGTTCACTGCCATGACGTATACCa > 1:2377970/1‑65 (MQ=255)
cGAATCCCTGGTGTGCGGCGTGTTCCCCAACCAGGATGGAACGTTCACTGCCATGACGTATACCAAAAg > 1:2063079/1‑69 (MQ=255)
cGAATCCCTGGTGTGCGGCGTGTTCCCCAACCAGGATGGAACGTTCACTGCCATGACGTATACCAAAAGc > 1:667690/1‑70 (MQ=255)
cGAATCCCTGGTGTGCGGCGTGTTCCCCAACCAGGATGGAACGTTCACTGCCATGACGTATACCAAAAGCa < 1:296415/71‑1 (MQ=255)
gAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCaa < 1:3690503/71‑1 (MQ=255)
gAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCa > 1:3536988/1‑70 (MQ=255)
gAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCa > 1:3532453/1‑70 (MQ=255)
aTCCCTGGTGTGCGGCGTGTTCCCCAACCAGGATGGAACGTTCACTGCCATGACGTATACCAAAAGc < 1:39852/67‑1 (MQ=255)
tctGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGt > 1:1360865/1‑71 (MQ=255)
ctGGTGTGCGGCGTGTTCCCCAACCAGGATGGAACGTTCACTGCCATGACGTATACCAAAAGCAAAACAtt > 1:1404636/1‑71 (MQ=255)
ctGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCaaaa > 1:816828/1‑67 (MQ=255)
ctGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCaaa > 1:2360745/1‑66 (MQ=255)
tGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGtt > 1:386150/1‑70 (MQ=255)
tGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGtt > 1:311942/1‑70 (MQ=255)
gtgtGCGGCGTGTTCCCCAACCAGGATGGAACGTTCACTGCCATGACGTATACCAAAAGCAAAACATTTaa < 1:2970778/71‑1 (MQ=255)
gtgtACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTaa < 1:238927/71‑1 (MQ=255)
gtgtACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTaa < 1:3844028/71‑1 (MQ=255)
tACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCa < 1:176364/58‑1 (MQ=255)
cGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTa > 1:3916346/1‑65 (MQ=255)
cGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTAAAAcc < 1:3676827/70‑1 (MQ=255)
cGGCGTGTTCCCCAACCAGGATGGAACGTTCACTGCCATGACGTATACCAAAAGCAAAACATTTaa < 1:2735242/66‑1 (MQ=255)
ggCGTGTTCCCCAACCAGGATGGAACGTTCACTGCCATGACGTATACCAAAAGCAAAACATTTAAAACCGa < 1:41107/71‑1 (MQ=255)
gCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTAAAACCGa > 1:2761011/1‑70 (MQ=255)
gCGTGTTCCCCAACCAGGATGGAACGTTCACTGCCATGACGTATACCAAAAGCAAAACAttt < 1:1738321/62‑1 (MQ=255)
cGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTaaa < 1:23565/64‑1 (MQ=255)
gtgtTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTAAAACCGaaaa < 1:553774/71‑1 (MQ=255)
tgtTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTaaaa > 1:1087032/1‑63 (MQ=255)
tgtTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTaaaa > 1:2926376/1‑63 (MQ=255)
tttCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTAAAACCGaaaa < 1:1761545/68‑1 (MQ=255)
tttCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTAAAACCGAAAATgg < 1:851923/71‑1 (MQ=255)
tttCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTAAAACCGAAAATgg < 1:3158471/71‑1 (MQ=255)
tCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTAAAACCGAAAATGGTg > 1:2929104/1‑71 (MQ=255)
cccaaCCAGGATGGAACGTTCACTGCCATGACGTATACCAAAAGCAAAACATTTAAAACCGAAACTGGTGc > 1:1490063/4‑71 (MQ=255)
ccAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTaa > 1:2051826/1‑56 (MQ=255)
cAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTAAAACCGAAAATGGTGc < 1:3745069/70‑1 (MQ=255)
caaCCAGGATGGAACGTTCACTGCCATGACGTATACCAAAAGCAAAACATTTAAAACCGaaa > 1:3023933/2‑62 (MQ=255)
cAGGATGGAACGTTCACTGCCATGACGTATACCAAAAGCAAAACATTTAAAACCGAAACTg < 1:3667758/61‑1 (MQ=255)
aGGATGGAACGTTCACTGCCATGACGTATACCAAAAGCAAAACATTTAAAACCGAAACTGGTGCGCGCCg < 1:784787/70‑1 (MQ=255)
aGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTAAAACCGAAAATGGTGCCCGTCgc < 1:52041/71‑1 (MQ=255)
ggATGGAACGTTCACTGGCATGACGTATACCAAAAGCAAAACATTTaaaa > 1:2531996/1‑50 (MQ=255)
gACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTa < 1:572479/46‑1 (MQ=255)
aCGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGttt < 1:671834/44‑1 (MQ=255)
aCGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTAAAACCGAAAATGGTGCCCGTCgctgg < 1:2816653/71‑1 (MQ=255)
gCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTAAAACCGaa < 1:1522643/50‑1 (MQ=255)
gCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTAAAACCGAAAATGGTGCCCGTCgctggctg > 1:1633841/1‑71 (MQ=255)
|
CAGCATGGATACTATCGATCTTGGCAACAACGAATCTCTGGTGTACGGCGTGTTTCCAAACCAGGACGGCACGTTCACCGCAATGACGTATACCAAAAGCAAAACGTTTAAAACCGAAAATGGTGCCCGTCGCTGGCTG > minE/982551‑982689
|
| 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
