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 |
|
A4 F21 I0 R1
|
1009 |
73.8 |
4146436 |
87.4% |
3623985 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,948,347 |
C→A |
16.2% |
intergenic (‑38/+81) |
gcvP ← / ← gcvH |
glycine decarboxylase, PLP‑dependent, subunit (protein P) of glycine cleavage complex/glycine cleavage complex lipoylprotein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,948,347 | 0 | C | A | 16.2%
| 261.8
/ 22.6
| 86 | intergenic (‑38/+81) | gcvP/gcvH | glycine decarboxylase, PLP‑dependent, subunit (protein P) of glycine cleavage complex/glycine cleavage complex lipoylprotein |
| Reads supporting (aligned to +/- strand): ref base C (31/41); new base A (9/5); total (40/46) |
| Fisher's exact test for biased strand distribution p-value = 2.41e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.62e-01 |
TTTTCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCACCCTGATCCTCTCCCGCAGAAGAG > minE/1948281‑1948416
|
ttttCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACctctc > 1:3841196/1‑71 (MQ=255)
tttCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACctctct > 1:3704325/1‑71 (MQ=255)
tttCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTCATGAAACGTGCAGTGAATTGTGAACatctc < 1:2241299/70‑1 (MQ=255)
ttCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACctctct < 1:3546378/70‑1 (MQ=255)
ttCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACctctct > 1:2145737/1‑70 (MQ=255)
ttCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCtctctc > 1:3705117/1‑71 (MQ=255)
ttCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCtctctc > 1:169746/1‑71 (MQ=255)
ttCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCtctctc > 1:3198929/1‑71 (MQ=255)
aGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAAcc < 1:601852/61‑1 (MQ=255)
gCTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACATCTCTCCTTAc > 1:2091168/1‑71 (MQ=255)
cTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACg < 1:3149787/71‑1 (MQ=255)
cTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACATCTCTCCTTAc > 1:1442453/1‑70 (MQ=255)
cTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACATCTCTCCTTAc > 1:1489819/1‑70 (MQ=255)
cTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACATCTCTCCTTACg < 1:3819649/71‑1 (MQ=255)
tGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACctct > 1:2929598/1‑61 (MQ=255)
tGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACg > 1:3524428/1‑70 (MQ=255)
tGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACg > 1:3682409/1‑70 (MQ=255)
tGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACg > 1:3667129/1‑70 (MQ=255)
ggCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACctct > 1:3327687/1‑60 (MQ=255)
gCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGa < 1:2228151/69‑1 (MQ=255)
ttAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGaa > 1:357743/1‑68 (MQ=255)
aaCGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACctctct > 1:1833398/1‑57 (MQ=255)
aaCGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAagagag > 1:1294802/1‑71 (MQ=255)
aCGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAagagag < 1:2400177/70‑1 (MQ=255)
aCGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAagagag < 1:2649869/70‑1 (MQ=255)
aCGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgt < 1:90512/71‑1 (MQ=255)
cGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtg < 1:515016/71‑1 (MQ=255)
cGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgt > 1:3010805/1‑70 (MQ=255)
cGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgt > 1:907047/1‑70 (MQ=255)
cGTCTGTGTCATGAACGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgt > 1:988548/1‑70 (MQ=255)
gTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtga < 1:2119530/71‑1 (MQ=255)
gTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtga < 1:3454517/71‑1 (MQ=255)
gTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACATCTCTCCTTACGAAGAGAgt > 1:1336981/1‑69 (MQ=255)
tctgtCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtgagg < 1:2307603/68‑1 (MQ=255)
gtgtCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtgag < 1:2363651/68‑1 (MQ=255)
tgtCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtgagggt < 1:2384251/70‑1 (MQ=255)
tgtCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtgagggt < 1:290045/70‑1 (MQ=255)
tgtCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtgaggg < 1:1418421/69‑1 (MQ=255)
tgtCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACATCTCTCCTTACGAAGAGAgtgagggt > 1:2105031/1‑70 (MQ=255)
tgtCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACATCTCTCCTTACGAAGAGAgtgagggt < 1:3958688/70‑1 (MQ=255)
tgtCATGAGCGATGGATCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtgagggt < 1:1630481/70‑1 (MQ=255)
gtCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtgagggt > 1:398845/1‑69 (MQ=255)
gtCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtgaggg > 1:1461313/1‑68 (MQ=255)
aTGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTTAGGc < 1:4093485/71‑1 (MQ=255)
tGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCt < 1:3207411/47‑1 (MQ=255)
gAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCa > 1:1631350/1‑70 (MQ=255)
aGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTcc > 1:2612596/1‑44 (MQ=255)
aGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAagag > 1:1106258/1‑54 (MQ=255)
aGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtgagggtgag > 1:31944/1‑66 (MQ=255)
aGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtgag > 1:339373/1‑60 (MQ=255)
aGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCAt > 1:1529256/1‑70 (MQ=255)
aGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCAt > 1:18876/1‑70 (MQ=255)
gCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGaa < 1:2853123/50‑1 (MQ=255)
gCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACATCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATa > 1:1679191/1‑70 (MQ=255)
cGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAagag < 1:3330272/52‑1 (MQ=255)
cGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGTTGAGGCATaaa < 1:3107923/71‑1 (MQ=255)
aTGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtgagggt < 1:2166550/59‑1 (MQ=255)
tGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtgagggtga > 1:3142303/1‑60 (MQ=255)
tGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAAttt < 1:2486855/71‑1 (MQ=255)
ggTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAAtttt > 1:1668607/1‑71 (MQ=255)
ggTTCCTGAAACGTGCAGTGAATTGTGAACATCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAAtttt > 1:2279561/1‑71 (MQ=255)
gTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGa < 1:1059765/43‑1 (MQ=255)
gTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGc > 1:3872905/1‑61 (MQ=255)
ttCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAag < 1:2769486/44‑1 (MQ=255)
ttCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTcc < 1:2374134/71‑1 (MQ=255)
ttCCTGAAACGTGCAGTGAATTGTGAACATCTCTCCTTACGAaga < 1:2574576/45‑1 (MQ=255)
tCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGaa > 1:1139357/1‑42 (MQ=255)
tCCTGAAACGTGCAGTGAATTGTGAACATCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCt > 1:760001/1‑71 (MQ=255)
ccTTAAACGTGCAGTGAATTGTTAACCTCTCTCCTTAAGaa < 1:3696254/41‑1 (MQ=37)
ccTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCt < 1:423090/70‑1 (MQ=255)
cTGAAACGTGCAGTGAATTGTGAACATCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTc < 1:2559798/70‑1 (MQ=255)
cTGAAACGTGCAGTGAATTGTGAACATCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTc < 1:3054796/70‑1 (MQ=255)
tGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAagag < 1:414163/42‑1 (MQ=255)
aaaCGTGCAGTGAATTGTGAACCTCTCTCCTTACGaa < 1:1661919/37‑1 (MQ=255)
aaaCGTGCAGTGAATTGTGAACCTCTCTCCTTACGaa < 1:2748026/37‑1 (MQ=255)
aaaCGTGCAGTGAAGTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCAcc < 1:4036963/70‑1 (MQ=255)
aaCGTGCAGTGAATTGTGAACCTCTCTCCTTACGaa < 1:1388214/36‑1 (MQ=255)
aaCGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCAcc < 1:2798044/69‑1 (MQ=255)
aCGTGCAGTGAATTGTGAACCTCTCTCCTTACGAaga > 1:3299910/1‑37 (MQ=255)
cGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCACCCTGa < 1:3746288/71‑1 (MQ=255)
cAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAgtga < 1:2207257/38‑1 (MQ=255)
gTGAATTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATaa < 1:4053705/49‑1 (MQ=255)
aaTTGTGAACCTCTCTCCTTACGAAGAGAgtgaggg > 1:388102/1‑36 (MQ=255)
aaTTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAAtttt > 1:2845152/1‑51 (MQ=255)
aaTTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCACCCTGATCCTCTccc > 1:1949101/1‑71 (MQ=255)
ttGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCACCCTTATCCTCTCCCg > 1:3867417/1‑70 (MQ=255)
gtgAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCAcc < 1:3204371/54‑1 (MQ=255)
gtgAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCACCCTGATCCTCTCCCg > 1:2433118/1‑68 (MQ=255)
tgAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCACCCTGATCCTCTCCCGCag < 1:2192582/70‑1 (MQ=255)
tgAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCACCCTGATCCTCTCCCGCag < 1:123836/70‑1 (MQ=255)
tgAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCACCCTGATCCTCTCACGCag < 1:1624438/70‑1 (MQ=255)
gAACATCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCAcc > 1:2876679/1‑52 (MQ=255)
aaCCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCAcc < 1:2831643/51‑1 (MQ=255)
aaCCTCTCTCCTTACGAAGAGAGTGAGGGAGAGGCAAAAAtttt > 1:718174/1‑44 (MQ=38)
aCCTCTCTCCTTACGAAGAGAGTGAGGGGGAGGCATAAATTTTCCTCAcc < 1:392281/50‑1 (MQ=255)
ccTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCACCCTGATCCTCTCCCGCAGAagag < 1:3844078/71‑1 (MQ=255)
ccTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCACCCTGATCCTCTCCCGCAGAagag > 1:2152216/1‑71 (MQ=255)
|
TTTTCAAGCTGGCTTAACGTCTGTGTCATGAGCGATGGTTCCTGAAACGTGCAGTGAATTGTGAACCTCTCTCCTTACGAAGAGAGTGAGGGTGAGGCATAAATTTTCCTCACCCTGATCCTCTCCCGCAGAAGAG > minE/1948281‑1948416
|
| 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
