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 |
|
A52 F1 I1 R1
|
19 |
66.0 |
4263516 |
97.2% |
4144137 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
1,610,902 |
T→C |
intergenic (‑42/+322) |
cspI ← / ← ydfP |
cold shock protein/conserved protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 1,610,902 | 0 | T | C | 96.0%
| 406.8
/ 0.1
| 99 | intergenic (‑42/+322) | cspI/ydfP | cold shock protein/conserved protein |
| Reads supporting (aligned to +/- strand): ref base T (3/1); new base C (36/59); total (39/60) |
| Fisher's exact test for biased strand distribution p-value = 2.97e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATTTCACTAAACCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGTCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAAATAATAAAATTATAACAAT > REL606/1610830‑1610974
|
aTTTCACTAAACCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCg < 1:1349590/76‑1 (MQ=255)
tttCACTAAACCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGa > 2:1714382/1‑76 (MQ=255)
tCACTAAACCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGaaa < 2:1621754/76‑1 (MQ=255)
tCACTAAACCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGaaa > 2:257714/1‑76 (MQ=255)
cACTAAACCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGaaaa < 1:2112612/76‑1 (MQ=255)
cACTAAACCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGaaaa < 2:891446/76‑1 (MQ=255)
cACTAAACCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGaaaa > 1:708618/1‑76 (MQ=255)
aCTAAACCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGaaaaa < 1:1654262/76‑1 (MQ=255)
tAAACCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGaaaaaaa > 1:1031359/1‑76 (MQ=255)
aaaCCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCTCTTGGGCAGAATGGCCCGaaaaaaaa > 1:738136/1‑76 (MQ=255)
aaaCCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGaaaaaaaa > 2:285789/1‑76 (MQ=255)
aaaCCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGaaaaaaaa > 2:1279119/1‑76 (MQ=255)
aaCCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAat < 1:1010469/76‑1 (MQ=255)
aaCCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAat < 1:488368/76‑1 (MQ=255)
aCCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAata > 2:1514923/1‑76 (MQ=255)
aCCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAata < 1:1835157/76‑1 (MQ=255)
ccAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAatat < 1:54488/76‑1 (MQ=255)
cAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATc < 1:1534549/76‑1 (MQ=255)
cAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATc < 1:916460/76‑1 (MQ=255)
cAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATc < 1:424121/76‑1 (MQ=255)
cAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATc > 1:1816237/1‑76 (MQ=255)
aGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCa < 1:1601206/76‑1 (MQ=255)
aGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCa > 1:1961733/1‑76 (MQ=255)
aGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCa < 2:1518460/76‑1 (MQ=255)
cATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCagag < 2:881357/76‑1 (MQ=255)
cATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCagag > 1:1914078/1‑76 (MQ=255)
cATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCagag < 1:1114406/76‑1 (MQ=255)
cATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCagag < 2:1510676/76‑1 (MQ=255)
cATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGCGCAGAATGGCCCGAAAAAAAATATCagag > 2:1256727/1‑76 (MQ=255)
ttttGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCagagag < 2:1193051/76‑1 (MQ=255)
tttGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAgagaga < 2:1350995/76‑1 (MQ=255)
tttGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAgagaga > 1:545297/1‑76 (MQ=255)
tttGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAgagaga < 1:957301/76‑1 (MQ=255)
tttGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAgagaga > 1:1088560/1‑76 (MQ=255)
tttGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAgagaga > 1:1416700/1‑76 (MQ=255)
tttGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAgagaga > 1:1898543/1‑76 (MQ=255)
ttGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGaa > 2:751862/1‑76 (MQ=255)
ttGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGaa < 2:391867/76‑1 (MQ=255)
ttAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGaaaaa > 1:1049753/1‑76 (MQ=255)
tAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAAc > 1:1115397/1‑76 (MQ=255)
tAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAAc > 1:480209/1‑76 (MQ=255)
aGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAAcc < 1:740022/76‑1 (MQ=255)
gACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACca > 2:1214602/1‑76 (MQ=255)
aCATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACcaa < 1:1227129/76‑1 (MQ=255)
aCATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACcaa < 2:1955662/76‑1 (MQ=255)
aCATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACcaa < 1:1227119/76‑1 (MQ=255)
catcatTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACcaac < 1:720648/76‑1 (MQ=255)
catTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAg < 1:702553/76‑1 (MQ=255)
tattaCCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGTCCGAAAAAAAATATCAGAGCGAAAAACCAACAAGGaa > 2:417609/1‑76 (MQ=255)
tattaCCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGaa < 1:773434/76‑1 (MQ=255)
tattaCCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGaa < 1:1751360/76‑1 (MQ=255)
attaCCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGaaa < 2:187538/76‑1 (MQ=255)
ttaCCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAAt < 2:1410382/76‑1 (MQ=255)
aCCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAAtct > 1:1191984/1‑76 (MQ=255)
aCCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAAtct > 2:25654/1‑76 (MQ=255)
ccTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAAtctc < 1:140920/76‑1 (MQ=255)
cTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCa < 2:1168578/76‑1 (MQ=255)
cTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCa < 1:616749/76‑1 (MQ=255)
cTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCa < 2:1727342/76‑1 (MQ=255)
ttttGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCaa < 2:766259/76‑1 (MQ=255)
ttttGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCaa < 2:1400797/76‑1 (MQ=255)
ttttGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCaa < 2:741631/76‑1 (MQ=255)
tttGAAGAAGTTAGCCCTTGGGCAGAATGGTCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAAGCTCAag > 2:714048/1‑76 (MQ=255)
tttGAAGAAGTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAag > 1:1286531/1‑76 (MQ=255)
aagaagTTAGCCCTTGGGCAGAATGGTCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGt < 1:1701272/76‑1 (MQ=255)
aagaagTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGt > 1:749001/1‑76 (MQ=255)
aagaagTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGt < 2:1775780/76‑1 (MQ=255)
agaagTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTa < 1:574371/76‑1 (MQ=255)
agaagTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTa < 2:1554925/76‑1 (MQ=255)
aagTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACa < 1:497848/76‑1 (MQ=255)
aagTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACa < 1:1180041/76‑1 (MQ=255)
aagTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACa < 1:208460/76‑1 (MQ=255)
aagTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACa < 1:1432604/76‑1 (MQ=255)
aagTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACa < 2:919661/76‑1 (MQ=255)
gTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGaaaaaa > 1:822545/1‑76 (MQ=255)
gTTAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACaaa < 1:958462/76‑1 (MQ=255)
ttAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAaat > 2:1004796/1‑76 (MQ=255)
ttAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAaat < 1:1872323/76‑1 (MQ=255)
tAGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAaata > 2:605043/1‑76 (MQ=255)
aGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAaataa > 2:1775363/1‑76 (MQ=255)
aGCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAaataa > 2:1344609/1‑76 (MQ=255)
gCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAaataat < 2:907364/76‑1 (MQ=255)
gCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAaataat < 2:326697/76‑1 (MQ=255)
gCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAaataat > 1:1342747/1‑76 (MQ=255)
gCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAaataat > 1:874193/1‑76 (MQ=255)
gCCCTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAaataat > 1:713979/1‑76 (MQ=255)
cccTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAAataata < 2:484130/76‑1 (MQ=255)
ccTTGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAAAtaataa < 2:2059054/76‑1 (MQ=255)
tGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAAATAATAAAAt > 2:926070/1‑76 (MQ=255)
tGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAAATAATAAAAt > 1:944218/1‑76 (MQ=255)
tGGGCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAAATAATAAAAt < 2:1232633/76‑1 (MQ=255)
gggCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAAATAATAAAAtt < 1:2002189/76‑1 (MQ=255)
agCAGAATGGTCCGAAAAAAAA‑ATCCGAGAGAAAAACCAACAAGGAAATCTCAAGGGGTACAAATAATAAAATtat > 2:351751/2‑76 (MQ=255)
gCAGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAAATAATAAAATtat < 2:471058/76‑1 (MQ=255)
aGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAAATAATAAAATTATaa > 1:326453/1‑76 (MQ=255)
aGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAAATAATAAAATTATaa < 2:770872/76‑1 (MQ=255)
aGAATGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAAATAATAAAATTATaa < 1:1210085/76‑1 (MQ=255)
aaTGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAAATAATAAAATTATAACa < 1:2098984/76‑1 (MQ=255)
tGGCCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAAATAATAAAATTATAACAAt < 2:1901687/76‑1 (MQ=255)
|
ATTTCACTAAACCAGTCATTTTGTTAGACATCATTATTACCTTTTGAAGAAGTTAGCCCTTGGGCAGAATGGTCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGGAAATCTCAAGAGGTACAAATAATAAAATTATAACAAT > REL606/1610830‑1610974
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
