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 R2
|
532 |
47.8 |
3863072 |
94.9% |
3666055 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,371,273 |
Δ2 bp |
100% |
intergenic (‑6/+299) |
dcuA ← / ← aspA |
C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,371,273 | 0 | A | . | 100.0%
| 171.1
/ NA
| 44 | intergenic (‑6/+300) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (25/19); total (25/19) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
| * | W3110S.gb | 4,371,274 | 0 | A | . | 100.0%
| 171.1
/ NA
| 44 | intergenic (‑7/+299) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (25/19); total (25/19) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GGGTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGAAAAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGTTTAA > W3110S.gb/4371203‑4371337
||
gggTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGa < 1:826754/71‑1 (MQ=255)
gggTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGa < 1:263136/71‑1 (MQ=255)
gggTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGa < 1:2053482/71‑1 (MQ=255)
gggTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGa < 1:1770575/71‑1 (MQ=255)
gggTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGa < 1:1647264/71‑1 (MQ=255)
gTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGaaa < 1:3133002/71‑1 (MQ=255)
agcagcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGAt < 1:1089189/71‑1 (MQ=255)
gcagcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATa < 1:133989/71‑1 (MQ=255)
cagcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATaa > 1:3212793/1‑71 (MQ=255)
gcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAAcc > 1:638507/1‑71 (MQ=255)
cTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGa < 1:1642038/54‑1 (MQ=255)
ttCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGc < 1:2481321/69‑1 (MQ=255)
tctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGAt < 1:3748582/70‑1 (MQ=255)
atgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATg < 1:2684104/70‑1 (MQ=255)
tAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATaa > 1:314224/1‑58 (MQ=255)
aGTCCAGACCGCCAGCAACCTGCATGTCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACAt > 1:59993/1‑69 (MQ=255)
aGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGa > 1:3022911/1‑42 (MQ=38)
aGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAGCCGCCATGATatg > 1:3175804/1‑56 (MQ=255)
aGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATc > 1:2995399/1‑70 (MQ=255)
aGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATc > 1:1465585/1‑70 (MQ=255)
gTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGa < 1:2198265/71‑1 (MQ=255)
cAGACCTCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCa > 1:2865810/1‑47 (MQ=37)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCa > 1:3504266/1‑47 (MQ=38)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCa > 1:1510232/1‑47 (MQ=38)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACg > 1:3315550/1‑71 (MQ=255)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACg > 1:1110416/1‑71 (MQ=255)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACg > 1:3099395/1‑71 (MQ=255)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACg > 1:2873104/1‑71 (MQ=255)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACg > 1:2009755/1‑71 (MQ=255)
cAGACCGCCAGCAAACTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACg > 1:2795932/1‑71 (MQ=255)
aGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGAt < 1:968651/50‑1 (MQ=255)
gACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCTATAACCGCCATGATAATGGAGATGACATCGAACggg < 1:679506/71‑1 (MQ=255)
gACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACggg < 1:2249182/71‑1 (MQ=255)
aCCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGc < 1:3012105/42‑1 (MQ=37)
aCCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGc < 1:147687/42‑1 (MQ=37)
aCCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGc < 1:3789563/42‑1 (MQ=37)
gCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATgg < 1:1121454/46‑1 (MQ=37)
aaCCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCgg < 1:952574/71‑1 (MQ=255)
ccTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATaa > 1:2690500/1‑39 (MQ=37)
atGCATGGCAG‑‑AAATAGCGGCGATAACCGCAATGATAATGGAGATGACATCGAACGGGa < 1:1692190/58‑1 (MQ=255)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGAt < 1:3016405/35‑1 (MQ=25)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGAt < 1:2403415/35‑1 (MQ=25)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGaa > 1:2808238/1‑53 (MQ=255)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGtt > 1:433731/1‑70 (MQ=255)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGtt > 1:2003597/1‑70 (MQ=255)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGtt > 1:3566944/1‑70 (MQ=255)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGtt > 1:746626/1‑70 (MQ=255)
gCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTAc > 1:3036725/1‑63 (MQ=255)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa > 1:2309654/1‑44 (MQ=38)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt < 1:580617/69‑1 (MQ=255)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGTTTaa < 1:592686/71‑1 (MQ=255)
||
GGGTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGAAAAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGTTTAA > W3110S.gb/4371203‑4371337
|
| 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
