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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,139,593 |
A→G |
62.0% |
A505A (GCT→GCC) |
infB ← |
fused protein chain initiation factor 2, IF2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,139,593 | 0 | A | G | 62.0%
| 38.8
/ 43.8
| 71 | A505A (GCT→GCC) | infB | fused protein chain initiation factor 2, IF2 |
| Reads supporting (aligned to +/- strand): ref base A (19/8); new base G (42/2); total (61/10) |
| Fisher's exact test for biased strand distribution p-value = 5.01e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01 |
CTCTTCCGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAGCTTCTGGTTTATCGATCTTGTTCACTGCAACCACCACCGGTACCTGCGCCGCTTTCGCGTGCTGG > minE/2139539‑2139659
|
ctctTCTGGCAGGATGCCGTACTGGGATAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:671130/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGTATCGGCTTCTg > 1:3075920/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:1149434/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:551874/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:414340/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:299941/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:2957182/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:2567106/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:2545741/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:2475729/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:2388540/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:2350847/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:2234405/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:2019483/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:1817607/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:1395733/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:1273502/1‑62 (MQ=255)
ctctTCTGGCAGGATGCCCTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:3298029/1‑62 (MQ=255)
ctctTCTGGCAGGATACCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTg > 1:1579828/1‑62 (MQ=255)
ctTCCGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAGCTTCTGGTTTATCGa > 1:2066641/1‑69 (MQ=255)
ctTCCGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAGCTTCTGGTTTATCGa > 1:2062624/1‑69 (MQ=255)
cAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAGCTTCTGGTTTATCGATCTTGtt < 1:2476966/69‑1 (MQ=255)
cAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAGCTTCTGGTTTATCGATCTTGtt < 1:2429523/69‑1 (MQ=255)
cAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAGCTTCTGGTTTATCGATCTTGtt < 1:2199806/69‑1 (MQ=255)
cAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAGCTTCTGGTTTATCGATCTTGtt < 1:610696/69‑1 (MQ=255)
cAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAGCTTCTGGTTTATCGATCTTGtt < 1:2860309/69‑1 (MQ=255)
cAGGATGCCGTACTGGGAGAGTTCGTTCATAACGCGATCCGGATCAGCTTCTGGTTTATCGATCTTGtt < 1:3348275/69‑1 (MQ=255)
aGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAGCTTCTGGTTTATCGATCTTGtt < 1:384372/68‑1 (MQ=255)
gCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAg > 1:432381/1‑41 (MQ=255)
gCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAGCTTCTGGTTTTTCGATCTTGTTCACTGc > 1:2112661/1‑69 (MQ=255)
gCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAGCTTCTGGTTTATCGATCTTGTTCACTg > 1:399036/1‑68 (MQ=255)
gCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAGCTTCTGGTTTATCGATCTTGTTCACTGc > 1:2882583/1‑69 (MQ=255)
gCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAGCTTCTGGTTTATCGATCTTGTTCACTGc > 1:1064760/1‑69 (MQ=255)
gCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAGCTTCTGGTTTATCGATCTTGTTCACTGc > 1:2928264/1‑69 (MQ=255)
cTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAaccac < 1:2781949/69‑1 (MQ=255)
cTGGGAGAGTTCGTTCTTAACGCGATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAaccac < 1:1674802/69‑1 (MQ=255)
cTTAACGCGATCCGGATCAGCTTCTGGTTTATCGATCTTGTTCACTGCAACCACCACCGGTACCTgcgc > 1:1223523/1‑69 (MQ=255)
cTTAACGCGATCCGGATCAGCTTCTGGTTTATCGATCTTGTTCACTGCAACCACCACCGGTACCTgcg > 1:761335/1‑68 (MQ=255)
cTTAACACGATCCGGATCAGCTTCTGGTTTATCGATCTTGTTCACTGCAACCACCACCGGTACCTgcgc > 1:1829153/1‑69 (MQ=255)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCacc > 1:1645108/1‑43 (MQ=37)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:3088553/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:1198228/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:3289092/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:2858213/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:569458/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:629618/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:619088/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:1262587/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:853464/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:2899556/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:883173/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:895180/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:1290037/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:1290749/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:2498405/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:1312317/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:1371726/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:1447760/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:1862369/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:1727225/1‑45 (MQ=38)
gcgATCCGGATCGGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:978494/1‑45 (MQ=38)
gcgATCCGGAT‑GGCTTCTGGTTTATCGATTTTGTTCACAGCAac > 1:1421889/1‑44 (MQ=25)
cgATCCGGATCAGCTTCTGGTTTATCGATCTTGTTCACTGCAaccacca > 1:2911087/1‑49 (MQ=255)
cgATCCGGATCAGCTTCTGGTTTATCGATCTTGTTCACTGCAACCACCACCGGTACCTGCGCCGCTTTc > 1:3336187/1‑69 (MQ=255)
cgATCCGGATCAGCTTCTGGTTTATCGATCTTGTTCACTGCAACCACCACCGGTACCTGCGCCGCTTTc > 1:2818086/1‑69 (MQ=255)
cgATCCGGATCAGCTTCTGGTTTATCGATCTTATTCACTGCAACCACCACCGGTACCTGCGCCGCTTTc > 1:1175369/1‑69 (MQ=255)
ccGGATCAGCTTCTGGTTTATCGATCTTGTTCACTGCAACCACCACCGGt < 1:736594/50‑1 (MQ=255)
tCAGCTTCTGGTTTATCGATCTTGTTCACTGCAACCACCACCGGTACCTGCGCCGCTTTCGCGTGCTgg > 1:585032/1‑69 (MQ=255)
tCAGCTTCTGGTTTATCGATCTTGTTCACTGCAACCACCACCGGTACCTGCGCCGCTTTCGCGTGCTgg > 1:2958566/1‑69 (MQ=255)
tCAGCTTCTGGTTTATCGATCTTGTTCACTGCAACCACCACCGGTACCTGCGCCGCTTTCGCGTGCTgg > 1:1662209/1‑69 (MQ=255)
tCAGCTTCTGGTTTATCGATCTTGTTCACTGCAACCACCACCGGTACCTGCGCCGCTTTCGCGTGCTg > 1:2808046/1‑68 (MQ=255)
|
CTCTTCCGGCAGGATGCCGTACTGGGAGAGTTCGTTCTTAACGCGATCCGGATCAGCTTCTGGTTTATCGATCTTGTTCACTGCAACCACCACCGGTACCTGCGCCGCTTTCGCGTGCTGG > minE/2139539‑2139659
|
| 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
