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 |
2,183,420 |
C→T |
50.6% |
C1232C (TGC→TGT) |
gltB → |
glutamate synthase, large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,183,420 | 0 | C | T | 50.6%
| ‑5.0
/ 71.9
| 77 | C1232C (TGC→TGT) | gltB | glutamate synthase, large subunit |
| Reads supporting (aligned to +/- strand): ref base C (29/9); new base T (10/29); total (39/38) |
| Fisher's exact test for biased strand distribution p-value = 1.12e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.96e-01 |
GCTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGT > minE/2183360‑2183487
|
gCTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGaaa > 1:1132087/1‑68 (MQ=255)
gCTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGaaa > 1:2748602/1‑68 (MQ=255)
gCTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGaaa > 1:1550754/1‑68 (MQ=255)
gCTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGaaa > 1:1395957/1‑68 (MQ=255)
gCTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGaa > 1:3257779/1‑67 (MQ=255)
ggCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAaacaa < 1:1375244/69‑1 (MQ=255)
gAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGt > 1:111614/1‑68 (MQ=255)
gAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGt > 1:1894726/1‑68 (MQ=255)
gAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGt > 1:1735917/1‑68 (MQ=255)
gAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGt > 1:2191679/1‑68 (MQ=255)
gAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGt > 1:1500274/1‑68 (MQ=255)
gAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGt > 1:393442/1‑68 (MQ=255)
gAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGt > 1:703498/1‑68 (MQ=255)
gAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGt > 1:918324/1‑68 (MQ=255)
gAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGt > 1:920822/1‑68 (MQ=255)
gAAGCTGCTGGAAACTGCCGAGCCACATGCAGGTAAGTCACTCTACTGTACCGAAAACAACccgccg < 1:2639378/67‑1 (MQ=255)
gAAGCTGCTGGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACccgccg < 1:330133/67‑1 (MQ=255)
gAAGCTGCTGGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACccgccg < 1:357386/67‑1 (MQ=255)
gAAGCTGCTGGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACccgccg < 1:2941575/67‑1 (MQ=255)
gAAGCTGCTGGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACccgccg < 1:2082570/67‑1 (MQ=255)
gAAGCTGCTGGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACccgccg < 1:2393067/67‑1 (MQ=255)
gAAGCTGCTGGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACccgccg < 1:1834479/67‑1 (MQ=255)
ctgctgGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGAt < 1:982952/69‑1 (MQ=255)
ctgctgGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGAt < 1:3082223/69‑1 (MQ=255)
ctgctgGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGAt < 1:580048/69‑1 (MQ=255)
ctgctgGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGAt < 1:2610036/69‑1 (MQ=255)
ctgctgGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGAt < 1:1058424/69‑1 (MQ=255)
ctgctgGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGAt < 1:1719534/69‑1 (MQ=255)
ctgGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAaaca > 1:1240965/1‑52 (MQ=25)
ctgGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAAc > 1:225756/1‑69 (MQ=255)
ctgGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAAc > 1:261281/1‑69 (MQ=255)
ctgGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAAc > 1:1505580/1‑69 (MQ=255)
ctgGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAAc > 1:1395242/1‑69 (MQ=255)
ctgGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAAc > 1:232890/1‑69 (MQ=255)
ctgGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAAc > 1:1345464/1‑69 (MQ=255)
ctgGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAAc > 1:514371/1‑69 (MQ=255)
ctgGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAAc > 1:1784893/1‑69 (MQ=255)
ctgGAAACTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAAc > 1:1856091/1‑69 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATACCGGc < 1:3412125/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:351995/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:2780988/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:407125/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:460401/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:49821/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:3232499/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:1206617/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:3146145/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:589507/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:3009857/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:1924626/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:1993824/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:2043713/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:1679624/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:1720395/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:2464838/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:2360141/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:2843336/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:2160520/65‑1 (MQ=255)
attcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:1831284/65‑1 (MQ=255)
ttcTGCCGAGCCACATGCAGGTAAGGCACTCTACTGTACCGAAAACAACCCGCCGTTTGATAACGGc < 1:790923/65‑1 (MQ=255)
ccGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAAcgcg < 1:1563192/69‑1 (MQ=255)
ccGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAAcgcg < 1:1675732/69‑1 (MQ=255)
aaGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTtgctgc > 1:2227963/1‑67 (MQ=255)
ctACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTACTGAACGCGCAGTTGCTGCAACAGGCGaa > 1:2690741/1‑69 (MQ=255)
aCTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAAc > 1:2252992/1‑69 (MQ=255)
aCTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAAc > 1:2480672/1‑69 (MQ=255)
aCTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAAc > 1:2799157/1‑69 (MQ=255)
aCTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAAc > 1:1295367/1‑69 (MQ=255)
gCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCg > 1:364182/1‑68 (MQ=255)
gCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCg > 1:1890099/1‑68 (MQ=255)
gCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGt > 1:998330/1‑69 (MQ=255)
gCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGt > 1:72274/1‑69 (MQ=255)
gCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGt > 1:445664/1‑69 (MQ=255)
gCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGt > 1:1316772/1‑69 (MQ=255)
gCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGt > 1:3202338/1‑69 (MQ=255)
gCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGt > 1:2870363/1‑69 (MQ=255)
gCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGt > 1:2203469/1‑69 (MQ=255)
|
GCTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGT > minE/2183360‑2183487
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
