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 |
389,409 |
C→T |
49.2% |
S309S (AGC→AGT) |
ybdL → |
methionine aminotransferase, PLP‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 389,409 | 0 | C | T | 49.2%
| ‑0.8
/ 56.4
| 65 | S309S (AGC→AGT) | ybdL | methionine aminotransferase, PLP‑dependent |
| Reads supporting (aligned to +/- strand): ref base C (17/16); new base T (17/15); total (34/31) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTATCTTGCGTTACCGGACTTTTATCGCCAGAAGCGCGATATTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCTGGTGGATTACAGCGCGGT > minE/389343‑389468
|
ttATCTTGCGTTACCGGACTTTTATCGCCAGAAGCGCGATATTCTGGTGAATGCTTTAAATGAAAGCCg < 1:923790/69‑1 (MQ=255)
gTTACCGGACTTTTATCGCCAGAAGCGCGATATTCTGGTGAATGCTTTAAACGAAAGCCGGCTGgag < 1:1954652/67‑1 (MQ=255)
gACTTTTATCGCCAGAAGCGCGATATTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCg < 1:354931/69‑1 (MQ=255)
gACTTTTATCGCCAGAAGCGCGATATTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCg < 1:3362269/69‑1 (MQ=255)
cTTTTATCGCCAGAAGCGCGATATTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTAc > 1:280041/1‑65 (MQ=255)
cTTTTATCGCCAGAAGCGCGATATTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTAc > 1:1802142/1‑65 (MQ=255)
aGCGCGATATTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACt > 1:628187/1‑69 (MQ=255)
aGCGCGATATTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACt > 1:1441255/1‑69 (MQ=255)
atTCTGGTGAATGCTTTAAATGAAAGCCGTCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCtg > 1:1553201/1‑69 (MQ=255)
atTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGAtttt > 1:545486/1‑41 (MQ=255)
atTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTAc > 1:1079127/1‑56 (MQ=255)
atTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCtg > 1:59546/1‑69 (MQ=255)
atTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCtg > 1:2571483/1‑69 (MQ=255)
atTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCtg > 1:2731388/1‑69 (MQ=255)
atTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCtg > 1:3091629/1‑69 (MQ=255)
atTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCtg > 1:2005658/1‑69 (MQ=255)
atTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCtg > 1:1249803/1‑69 (MQ=255)
atTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCtg > 1:1201324/1‑69 (MQ=255)
atTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCtg > 1:1344522/1‑69 (MQ=255)
atTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCtg > 1:1545323/1‑69 (MQ=255)
atTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCt > 1:711542/1‑68 (MQ=255)
cTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAgg < 1:3281918/50‑1 (MQ=255)
cTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAgg < 1:3412186/50‑1 (MQ=255)
cTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAgg < 1:741025/50‑1 (MQ=255)
tGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCtggtg < 1:2344159/68‑1 (MQ=255)
tGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCtggtg < 1:2369457/68‑1 (MQ=255)
tGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCtggtg < 1:2498958/68‑1 (MQ=255)
tGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCtggtg < 1:933917/68‑1 (MQ=255)
tGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCtggtg < 1:651772/68‑1 (MQ=255)
aaTGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCTGGTGGATTAc < 1:3043140/69‑1 (MQ=255)
tAAATGAAAGTCGGCTGGAGATTTTACCGTGCGAAGTTACATACTTTTTGCtggtgg < 1:2715565/57‑1 (MQ=255)
tAAATGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCtggtgg < 1:2810705/57‑1 (MQ=255)
tAAATGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCtggtgg < 1:3075400/57‑1 (MQ=255)
tAAATGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCtggtgg < 1:3259203/57‑1 (MQ=255)
tAAATGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCtggtgg < 1:1041071/57‑1 (MQ=255)
tAAATGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCtggtgg < 1:2580694/57‑1 (MQ=255)
tAAATGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCtggtgg < 1:1417506/57‑1 (MQ=255)
tAAATGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCtggtgg < 1:2511119/57‑1 (MQ=255)
tAAATGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCtggtgg < 1:2186516/57‑1 (MQ=255)
tAAATGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCtggtgg < 1:123680/57‑1 (MQ=255)
tAAATGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCtggtgg < 1:1959119/57‑1 (MQ=255)
tAAATGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCtggtgg < 1:1592894/57‑1 (MQ=255)
tAAATGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCtggtgg < 1:1354836/57‑1 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGGAGGTACATACTTTTTGCTGGTGGAt > 1:2565983/1‑58 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTa > 1:1213136/1‑38 (MQ=38)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTAGATACTTTTTGCTGGTGGAt > 1:1848984/1‑58 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTg > 1:925150/1‑49 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCTGGTGGa > 1:2786762/1‑57 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCTGGTGGAt > 1:804382/1‑58 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCTGGTGGAt > 1:877345/1‑58 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCTGGTGGAt > 1:968655/1‑58 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCTGGTGGAt > 1:551081/1‑58 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCTGGTGGAt > 1:3170902/1‑58 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCTGGTGGAt > 1:269874/1‑58 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCTGGTGGAt > 1:2681791/1‑58 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCTGGTGGAt > 1:2500785/1‑58 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCTGGTGGAt > 1:2193268/1‑58 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCTGGTGGAt > 1:2080796/1‑58 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCTGGTGGAt > 1:2053215/1‑58 (MQ=255)
aaaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCTGGTGGAt > 1:1095171/1‑58 (MQ=255)
aaTGAAAGTCGTCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCtgttgg < 1:2909357/55‑1 (MQ=255)
aaTGAAAGTCGGCTGGAGATTTTACCGTGCGAAGGTACATACTTTTTGCtggtgg < 1:794322/55‑1 (MQ=255)
aaTGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCTGGTGGATTACAGCGCGGt < 1:552667/68‑1 (MQ=255)
aaTGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCTGGTGGATTACAGCGCGGt < 1:1204237/68‑1 (MQ=255)
aaTGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCTGGTGGATTACAGCACGGt < 1:2692978/68‑1 (MQ=255)
|
TTATCTTGCGTTACCGGACTTTTATCGCCAGAAGCGCGATATTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCTGGTGGATTACAGCGCGGT > minE/389343‑389468
|
| 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
