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 F1 I0 R1
|
92 |
46.1 |
3712835 |
96.9% |
3597737 |
60.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,721,254 |
A→C |
23.4% |
intergenic (+124/‑229) |
atpC → / → glmU |
F1 sector of membrane‑bound ATP synthase, epsilon subunit/fused N‑acetyl glucosamine‑1‑phosphate uridyltransferase and glucosamine‑1‑phosphate acetyl transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,721,254 | 0 | A | C | 23.4%
| 82.3
/ 47.9
| 70 | intergenic (+124/‑229) | atpC/glmU | F1 sector of membrane‑bound ATP synthase, epsilon subunit/fused N‑acetyl glucosamine‑1‑phosphate uridyltransferase and glucosamine‑1‑phosphate acetyl transferase |
| Reads supporting (aligned to +/- strand): ref base A (24/29); new base C (5/11); total (29/41) |
| Fisher's exact test for biased strand distribution p-value = 3.94e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.71e-01 |
GTGTGACCCGTCCTGAATAGCGTTCACATAGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTAAATTAAGGTACTGCCTTAATTTTCTG > W3110S.gb/3721187‑3721323
|
gtgtGACCCGTCCTGAATAGCGTTCACATAGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTAtt > 1:760983/1‑70 (MQ=255)
tgtgACCCGTCCTGAATAGCGTTCACATAGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCa < 1:1495618/71‑1 (MQ=255)
tCCTGAATAGCGTTCACATAGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGaa < 1:1067227/71‑1 (MQ=255)
cTGAATAGCGTTCACATAGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGaaa > 1:3200877/1‑70 (MQ=255)
aaTAGCGTTCACATAGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATaa < 1:3454509/70‑1 (MQ=255)
cGTTCACATAGATCCTGCTGATATAAAACCACCCTGTTTTCCTGTTTATTCATTGATCGAAATaa > 1:2147202/1‑65 (MQ=255)
gTTCACATAGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATaa < 1:2886120/64‑1 (MQ=255)
gTTCACATAGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCaaa < 1:222809/71‑1 (MQ=255)
gTTCACATAGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCaaa < 1:2735123/71‑1 (MQ=255)
ttCACATAGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCaaa < 1:1083152/70‑1 (MQ=255)
acaTAGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAAc < 1:2499438/70‑1 (MQ=255)
caTAGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTAtt < 1:757309/44‑1 (MQ=255)
tAGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATcc < 1:2300016/71‑1 (MQ=255)
tAGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATc > 1:3243877/1‑70 (MQ=255)
aGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCa > 1:3612018/1‑43 (MQ=255)
aTCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCa < 1:3251117/59‑1 (MQ=255)
ccTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCt > 1:105708/1‑70 (MQ=255)
ctgctgATATAAAACCCCCCTGTTTTCCTGTTTAtt < 1:3213723/36‑1 (MQ=255)
ctgctgATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTg < 1:268101/70‑1 (MQ=255)
ctgATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGc > 1:1985888/1‑71 (MQ=255)
gATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTg > 1:1053758/1‑65 (MQ=255)
gATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCt > 1:3066788/1‑70 (MQ=255)
gATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCt > 1:1140953/1‑70 (MQ=255)
atatAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCt > 1:2487464/1‑69 (MQ=255)
atatAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTa < 1:1929079/71‑1 (MQ=255)
tataAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTa < 1:3545570/70‑1 (MQ=255)
taAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAAt < 1:568005/40‑1 (MQ=255)
taAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCaaaa < 1:853500/50‑1 (MQ=255)
taAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTa < 1:1847006/68‑1 (MQ=255)
aaaCCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATaa < 1:3157478/40‑1 (MQ=255)
aaaCCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTaaa > 1:1655298/1‑68 (MQ=255)
aaaCCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTAAAtt < 1:2113947/70‑1 (MQ=255)
aaaCCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTAAAtt > 1:3630826/1‑70 (MQ=255)
aaCCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTAAATTaa < 1:159033/71‑1 (MQ=255)
aCCCCCCTGTTTTCCTGTTTATTCATTGATCGaaa < 1:3466849/35‑1 (MQ=255)
ccccTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCaaaa < 1:3663074/43‑1 (MQ=255)
ttgTTTTCCTGTTTCTTtttcaatgatgtcagataaat < 1:1048223‑M1/37‑22 (MQ=255)
ttgTTTTCCTGTTTCTTtttcaatgatgtcagataaat < 1:2359972‑M1/37‑22 (MQ=255)
ttgTTTTCCTGTTTCTTtttcaatgatgtcagataaat < 1:1167964‑M1/37‑22 (MQ=255)
ttgTTTTCCTGTTTCTTtttcaatgatgtcagataaat < 1:727547‑M1/37‑22 (MQ=255)
ttgTTTTCCTGTTTCTTtttcaatgatgtcagataaa < 1:3181291‑M1/36‑21 (MQ=255)
ttgTTTTCCTGTTTCTTtttcaatgatgtcagataaa < 1:1507670‑M1/36‑21 (MQ=255)
ttgTTTTCCTGTTTCTTtttcaatgatgtcagataa < 1:2168559‑M1/35‑20 (MQ=255)
cTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACa < 1:3557049/43‑1 (MQ=255)
tGTTTTCCTGTTTCTTtttcaatgatgtcagataaatt > 1:1522072‑M1/1‑16 (MQ=255)
tGTTTTCCTGTTTCTTtttcaatgatgtcagataaat < 1:1705872‑M1/37‑22 (MQ=255)
tGTTTTCCTGTTTCTTtttcaatgatgtcagataaa < 1:2079721‑M1/36‑21 (MQ=255)
tGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAAc > 1:2814279/1‑41 (MQ=255)
tGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACAt > 1:3259934/1‑43 (MQ=255)
tGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTAAATTAAgg < 1:1316659/65‑1 (MQ=255)
tGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTAAATTAAgg < 1:1557290/65‑1 (MQ=255)
tGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTAAATTAAGGTa > 1:2732782/1‑67 (MQ=255)
gTTTTCCTGTTTGTTCATTGTTCGAAATAAGAGCa < 1:2644207/35‑1 (MQ=38)
gTTTTCCTGTTTCTTtttcaatgatgtcagataaatt > 1:1301052‑M1/1‑15 (MQ=255)
gTTTTCCTGTTTCTTtttcaatgatgtcagataaatt > 1:2456335‑M1/1‑15 (MQ=255)
gTTTTCCTGTTTCTTtttcaatgatgtcagataaat > 1:1413530‑M1/1‑15 (MQ=255)
gTTTTCCTGTTTCTTtttcaatgatgtcagataaat < 1:625902‑M1/36‑22 (MQ=255)
gTTTTCCTGTTTCTTtttcaatgatgtcagataaa < 1:2150284‑M1/35‑21 (MQ=255)
ttttCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGa > 1:2593478/1‑49 (MQ=255)
ttttCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTaaa > 1:729760/1‑57 (MQ=255)
ttttCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTAAATTAAGGTACTGCCt > 1:3081204/1‑71 (MQ=255)
tttCCTGTTTCTTtttcaatgatgtcagataaatt > 1:3048882‑M1/1‑13 (MQ=255)
ttCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCt > 1:3116730/1‑45 (MQ=255)
ttCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACg > 1:1383417/1‑49 (MQ=255)
tCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTAAATTAAGGTACTGCCTTa < 1:2451832/70‑1 (MQ=255)
ccTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTAAATTAAGGTACTGCCTTa < 1:1639586/69‑1 (MQ=255)
tttATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTAAATTAAGGTACTGCCTTAAtttt > 1:2965364/1‑70 (MQ=255)
ttATTCATTGATCGAAATAAGAGCAAAAACATCCACCTg < 1:3203284/39‑1 (MQ=255)
tATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTAAATTAAGGTACTGCCTTAAt > 1:2549391/1‑65 (MQ=255)
tATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTAAATTAAGGTACTGCCTTAATTTTCTg > 1:1434404/1‑71 (MQ=255)
aTTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTAAATTAAGGTACTGCCTTAATTTTCTg > 1:3706550/1‑70 (MQ=255)
|
GTGTGACCCGTCCTGAATAGCGTTCACATAGATCCTGCTGATATAAAACCCCCCTGTTTTCCTGTTTATTCATTGATCGAAATAAGAGCAAAAACATCCACCTGACGCTTAAATTAAGGTACTGCCTTAATTTTCTG > W3110S.gb/3721187‑3721323
|
| 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
