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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,989,906 |
A→G |
21.1% |
intergenic (+250/‑18) |
ygeF → / → ygeG |
hypothetical protein/predicted chaperone |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,989,906 | 0 | A | G | 21.1%
| 139.0
/ 36.5
| 71 | intergenic (+250/‑18) | ygeF/ygeG | hypothetical protein/predicted chaperone |
| Reads supporting (aligned to +/- strand): ref base A (22/34); new base G (6/9); total (28/43) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.91e-01 |
ATAATTTAAAAAAGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGTGATGAATGGGCAAA > W3110S.gb/2989839‑2989973
|
aTAATTTAAAAAAGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGacac < 1:3916941/69‑1 (MQ=255)
tAATTTAAAAAAGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACAt < 1:3363979/70‑1 (MQ=255)
tttAAAAATGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATcaca < 1:894740/71‑1 (MQ=255)
aaaGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACGCATCACAGAGGaa < 1:2511448/71‑1 (MQ=255)
aTAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGaa < 1:3204180/67‑1 (MQ=255)
aaaaTATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGcaca < 1:4303496/71‑1 (MQ=255)
atatCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGa > 1:1114230/1‑70 (MQ=255)
tatCAATGAGTCAATCAATAATAATTTGGCATCACGAGACGCATCACAGAGGAATATTATGAGCACAGaaa < 1:271432/71‑1 (MQ=255)
tatCAATGAGTCAATCAATAATAATTTGGCATCACGAGACGCATCACAGAGGAATATTATGAGCACAGaaa > 1:1351914/1‑71 (MQ=255)
tatCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGaaa > 1:4226260/1‑71 (MQ=255)
tCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACa < 1:685771/71‑1 (MQ=255)
tCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACa < 1:3693080/71‑1 (MQ=255)
cAATGAGTCAATCAATAATAATTTGGCATCACGAGacac > 1:4547428/1‑39 (MQ=255)
tGAGTCAATCAATAATAATTTGGCATCACGAGACGCATCACAGAGGAATATTATGAGCACAGAAACAATTg < 1:403425/71‑1 (MQ=255)
tGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAatat < 1:1419566/51‑1 (MQ=255)
aGTCAATCAATAATAATTTGGCATCACGAGACGCATCACAGAGGAata > 1:120233/1‑48 (MQ=255)
aGTCAATCAATAATAATTTGGCATCACGAGACGCATCACAGAGGAATATTATGAGCACAGAAACAATTGa > 1:1795079/1‑70 (MQ=255)
aGTCAATCAATAATAATTTGGCATCACGAGACGCATCACAGAGGAATATTATGAGCACAGAAACAATTGa < 1:4491745/70‑1 (MQ=255)
aGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAAtatta > 1:4129888/1‑51 (MQ=255)
tcaatcaaTAATAATTTGGCATCACGAGACACATcac > 1:369433/1‑37 (MQ=255)
tcaatcaaTAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGcaca < 1:4381842/57‑1 (MQ=255)
caatcaatAATAATTTGGCATCACGAGACGCATCACAGAGGAATATTATGAg < 1:2808799/52‑1 (MQ=255)
aatcaatAATAATTTGGCATCACGAGACACATCACagag > 1:3480692/1‑39 (MQ=255)
aatcaatAATAATTTGGCATCACGAGACACATCACAGAGGAata > 1:4165056/1‑44 (MQ=255)
aatcaatAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACaa > 1:4244968/1‑62 (MQ=255)
aatcaatAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAAt < 1:1701973/63‑1 (MQ=255)
atcaatAATAATTTGGCATCACGAGACGCATcaca < 1:1072817/35‑1 (MQ=255)
atcaatAATAATTTGGCATCACGAGACGCATCACAGAGGAATATTATGAGCACAGAAACAATTg < 1:1286726/64‑1 (MQ=255)
atcaatAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGa > 1:2538542/1‑49 (MQ=255)
tcaatAATAATTTGGCATCACGAGACGCATCACAGAGGAATATTATGAGCACAGAAACAATTg < 1:3768331/63‑1 (MQ=255)
tcaatAATAATTTGGCATCACGAGACACATCACaga < 1:4471813/36‑1 (MQ=255)
tcaatAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGa < 1:1255650/48‑1 (MQ=255)
tcaatAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGa < 1:3157535/64‑1 (MQ=255)
tcaatAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTc < 1:1435928/71‑1 (MQ=255)
tcaatAATAATTTGGCATAACGAGACACATCACAGAGGAATATTATGAGcac < 1:1754208/52‑1 (MQ=255)
caatAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTc > 1:2621703/1‑70 (MQ=255)
aataataatTTGGCATCACGAGACACATCACAGAGGaa < 1:3914516/38‑1 (MQ=255)
aataataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAg > 1:2746852/1‑52 (MQ=255)
aataataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaa > 1:1182077/1‑71 (MQ=255)
aataataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaa > 1:3637531/1‑71 (MQ=255)
aataataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCa < 1:2714079/70‑1 (MQ=255)
ataataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAAAATTCaat < 1:1865298/71‑1 (MQ=255)
taataatTTGGCATCACGAGACACATCACAGAGGAata < 1:1459369/38‑1 (MQ=255)
taataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaat < 1:2137825/70‑1 (MQ=255)
taataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaat > 1:2195630/1‑70 (MQ=255)
ataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaataa < 1:344749/70‑1 (MQ=255)
ataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaataa < 1:2577911/70‑1 (MQ=255)
aatTTGGCATCACGAGACGCATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAg > 1:2573337/1‑71 (MQ=255)
aatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaataa < 1:820206/68‑1 (MQ=255)
aatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaataa < 1:1707211/68‑1 (MQ=255)
atTTGGCATCACGAGACGCATCACAGAGGAATATTATGAGCACAGAAACAATTGAAata > 1:2724841/1‑59 (MQ=255)
atTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAg < 1:3692614/70‑1 (MQ=255)
atTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAAAAATAGt < 1:4074839/71‑1 (MQ=255)
tGGCATCACGAGACACATCGCAGAGGAATATTATGAg > 1:3103488/1‑37 (MQ=255)
gCATGACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGtgatg < 1:4302279/70‑1 (MQ=255)
gCATCACGAGACGCATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGtgatg < 1:2808158/70‑1 (MQ=255)
gCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGtgatg < 1:549620/70‑1 (MQ=255)
gCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGtgatg < 1:4537672/70‑1 (MQ=255)
aTCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGtgatga < 1:2087889/69‑1 (MQ=255)
aTCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGTGATGAAt < 1:3198260/71‑1 (MQ=255)
tCACGAGACGCATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGTGATGAATg > 1:1338546/1‑71 (MQ=255)
tCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaata < 1:4404357/58‑1 (MQ=255)
tCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGtgatg < 1:1857331/67‑1 (MQ=255)
tCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGtgatg < 1:447811/67‑1 (MQ=255)
tCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGtgatg < 1:2051630/67‑1 (MQ=255)
cACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAat > 1:3303903/1‑49 (MQ=255)
aCGAGACACATCACAGAGGAATATTATGAGCACAGAAACaa > 1:2860480/1‑41 (MQ=255)
aCGAGACACATCACAGAGGAATATTATGAGCACAGAAACAAt > 1:1445409/1‑42 (MQ=255)
aCGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGa > 1:4602503/1‑45 (MQ=255)
aCGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAatat > 1:2705415/1‑50 (MQ=255)
cGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGaa > 1:1959849/1‑45 (MQ=255)
gagaCACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAat > 1:717566/1‑46 (MQ=255)
gaCACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGTGATGAATGGGCaaa > 1:3994921/1‑71 (MQ=255)
acacATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTc < 1:662118/47‑1 (MQ=255)
|
ATAATTTAAAAAAGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGTGATGAATGGGCAAA > W3110S.gb/2989839‑2989973
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
