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 |
|
A2 F999 I1 R1
|
226 |
132.7 |
9745491 |
85.7% |
8351885 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,714,436 |
2 bp→GC |
coding (261‑262/660 nt) |
yiaD → |
putative outer membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,714,436 | 0 | C | G | 99.0%
| 255.4
/ ‑4.9
| 100 | N87K (AAC→AAG) | yiaD | putative outer membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base G (52/47); minor base A (1/0); total (53/47) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.66e-01 |
| * | NC_000913 | 3,714,437 | 0 | G | C | 98.0%
| 244.4
/ NA
| 100 | V88L (GTG→CTG) | yiaD | putative outer membrane protein |
| Reads supporting (aligned to +/- strand): ref base G (2/0); new base C (50/47); total (53/47) |
| Fisher's exact test for biased strand distribution p-value = 4.96e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 102 total aligned reads displayed.
GCTGATTGGCGCAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAACGTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAATAT > NC_000913/3714364‑3714504
||
gcTGATTGGCGCAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGGAGGGAGCGGAGGTg > 1:1621173/1‑76 (MQ=255)
tGATTGGCGCAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGGTATTACATGGATGTGGGGGAAGCGAAGGTggg > 1:279891/1‑74 (MQ=255)
gATTGGCGCAGCAGCAGGCGCGGCGCTGGGCGGCGGCGTTGGGTATTACATGGCTGGCCAGGAAGCGAAGCTgcgc > 2:1632178/1‑76 (MQ=255)
gATTGGCGCAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTgcgc > 2:2483328/1‑76 (MQ=255)
aTTGGCGCAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGcgcg > 1:1708381/1‑76 (MQ=255)
ttGGCGCAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGa < 1:1148667/76‑1 (MQ=255)
ttGGCGCAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGa < 1:2642542/76‑1 (MQ=255)
gtcgcAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGCAGCTGCGCGACa < 1:3872364/74‑1 (MQ=255)
gcgcAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCCGGAAGCGCAGCTGCGCGACaa > 2:1976061/1‑76 (MQ=255)
gcgcAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACaa < 1:3231701/76‑1 (MQ=255)
cgcAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCCCGACaaa > 2:3355854/1‑76 (MQ=255)
cannngcagGCGCAGCTCTGNGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGANGCTGCGCGACAAAAt < 1:4597361/76‑1 (MQ=255)
cagcagcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAAt < 1:3655119/76‑1 (MQ=255)
cagcagcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAAt < 1:3227243/76‑1 (MQ=255)
cagcagcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAAt < 1:802827/76‑1 (MQ=255)
cagcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATgcg > 1:971693/1‑76 (MQ=255)
cagcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATgcg < 1:4718943/76‑1 (MQ=255)
agcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATgcgc < 1:518284/76‑1 (MQ=255)
agcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATgcgc > 1:504773/1‑76 (MQ=255)
agcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATgcgc > 1:1045751/1‑76 (MQ=255)
gcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGcgcg > 1:2146939/1‑76 (MQ=255)
gcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCCGCGCGACAAAATGcgcg > 2:4127507/1‑76 (MQ=255)
cagGCGCGGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCgg < 2:1318732/76‑1 (MQ=255)
cagGCGCATCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCgg < 2:1362809/76‑1 (MQ=255)
agGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGc > 1:602042/1‑76 (MQ=255)
agGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGc > 1:2111598/1‑76 (MQ=255)
ggCGCAGCTCGGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCa < 2:4310551/76‑1 (MQ=255)
gcgcCGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCAc < 2:3597544/76‑1 (MQ=255)
cgcAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAACGCGCGGCAcc > 2:2994882/1‑75 (MQ=255)
gcAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTg < 1:1598701/76‑1 (MQ=255)
cAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTgg < 1:2314153/76‑1 (MQ=255)
aGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGgt > 1:2487342/1‑76 (MQ=255)
gCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACCAAATGCGCGGCACTCgtg > 2:136013/1‑76 (MQ=255)
ctctGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGGGCGGGCCTGgggt > 2:21068/1‑76 (MQ=255)
ctctGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGgtgt > 1:3878886/1‑76 (MQ=255)
tctGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGtt < 1:2786053/76‑1 (MQ=255)
ctGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTa < 2:2649808/76‑1 (MQ=255)
ggcggcggcGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCg > 2:511980/1‑76 (MQ=255)
ggcggcggcGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCg > 1:1811643/1‑76 (MQ=255)
ggcggcggcGTTGGGTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAAGGCGCGGCAGTGGTGTTAGCg > 1:4677147/1‑76 (MQ=255)
ggcggcggcGTTGATTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCg < 1:2169786/76‑1 (MQ=255)
gggcggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTa < 1:276221/75‑1 (MQ=255)
cggcggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCgaa < 1:3474679/76‑3 (MQ=255)
cggcggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTAGTGTTAGCGTa > 1:3440157/1‑76 (MQ=255)
ggcggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTaa > 1:2919628/1‑76 (MQ=255)
gcggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAAc > 2:2858457/1‑76 (MQ=255)
cggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAAcc > 1:2407821/1‑76 (MQ=255)
cggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAAcc < 1:2468110/76‑1 (MQ=255)
ggggTTGGGTATTACATGGAGGGGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAAccc < 2:4750353/73‑1 (MQ=255)
ggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAAccc < 1:2330262/76‑1 (MQ=255)
ggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAAccc > 2:1793193/1‑76 (MQ=255)
ggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAAccc < 1:160993/76‑1 (MQ=255)
ggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAAccc > 1:2037019/1‑76 (MQ=255)
gcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCg > 2:2801900/1‑76 (MQ=255)
gcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCg > 2:3324205/1‑76 (MQ=255)
cgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGc > 2:1775855/1‑76 (MQ=255)
gTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCa > 1:1077356/1‑76 (MQ=255)
gTTGGTTATTACATGGATGTGCAGGAAGCGAAACTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCa > 1:3106942/1‑76 (MQ=255)
gTTGGTTAGTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCa < 2:4844600/76‑1 (MQ=255)
ttGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAg > 1:3329981/1‑76 (MQ=255)
tGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGc < 1:21068/76‑1 (MQ=255)
ggTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCg > 1:3445747/1‑76 (MQ=255)
gTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCgg < 2:2002190/76‑1 (MQ=255)
ttattaCATGGATGGGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCggg < 2:447471/76‑1 (MQ=255)
tattaCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCgggg > 2:2481056/1‑76 (MQ=255)
attaCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGa < 1:3137199/76‑1 (MQ=255)
attaCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGa > 2:1486695/1‑76 (MQ=255)
attaCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGa < 1:3525348/76‑1 (MQ=255)
attaCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGa < 2:525288/76‑1 (MQ=255)
ttaCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGAt > 1:36423/1‑76 (MQ=255)
taCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATa > 1:4408050/1‑76 (MQ=255)
cATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAGCCCGCAGCGGGGATAAc < 1:4730826/76‑1 (MQ=255)
cATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAAc > 1:81219/1‑76 (MQ=255)
cATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAAc < 2:2884903/76‑1 (MQ=255)
cATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAAc > 1:1642573/1‑76 (MQ=255)
aTGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACa < 2:1685713/76‑1 (MQ=255)
aTGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACa > 2:2301412/1‑76 (MQ=255)
aTGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGAGAACa > 2:597281/1‑76 (MQ=255)
tGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACAt < 1:4397008/76‑1 (MQ=255)
tGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAAAAt > 1:4801940/1‑76 (MQ=255)
aTGTGCAGGCAGCGCAGCTGCGCTCGAAAATGCGCGGCATTGGTGTTAGCGTCACCCGCAGCGGGGATAACATTAt < 1:315053/76‑1 (MQ=255)
tgtgCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATc < 1:4037567/76‑1 (MQ=255)
gtgCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATcc < 2:2416090/76‑1 (MQ=255)
gtgCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATcc > 1:1031914/1‑76 (MQ=255)
tgCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCt < 1:63467/76‑1 (MQ=255)
gCAGGAAGCGAAGCTGCGCGCCAAAATGCGCGGCACTGGTGTTAGCGTAGCCCGCAGCGGGGATAACATTATGCTc < 2:374014/76‑1 (MQ=255)
gCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTc < 1:2811949/76‑1 (MQ=255)
gCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGAACCCCCCAGCGGGGAAACAATTACCCTc > 2:3437443/1‑76 (MQ=255)
cAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCa > 1:3584960/1‑76 (MQ=255)
aGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCCGCGGGGATAACATTATCCTCaa < 1:665093/76‑1 (MQ=255)
aGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCaa > 2:2951490/1‑76 (MQ=255)
aGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCaa > 1:314295/1‑76 (MQ=255)
aGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGCGTTAGCGTAACCCGCAGCGGGGACAACATTATCCTCaa > 1:4206760/1‑76 (MQ=255)
ggAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAat > 2:2894780/1‑76 (MQ=255)
ggAAGCGAAGATGCGCGACAAAAAGCGCGGCACTGGTGATAGCGTAACCCGCAGCAGCGATAACATTATCGTcgat > 1:3466382/1‑73 (MQ=255)
gaagcgaagcTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAata < 1:584739/76‑1 (MQ=255)
gaagcgaagcTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAata > 1:884985/1‑76 (MQ=255)
aaGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAatat < 1:3265884/76‑1 (MQ=255)
aaGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAatat < 1:3613413/76‑1 (MQ=255)
aaGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAatat < 2:1862621/76‑1 (MQ=255)
||
GCTGATTGGCGCAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAACGTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAATAT > NC_000913/3714364‑3714504
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
