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 |
|
A5 F3 I0 R2
|
52 |
68.8 |
5189613 |
98.4% |
5106579 |
62.2 |
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%
| 289.9
/ NA
| 70 | intergenic (‑6/+300) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (35/35); total (35/35) |
| 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%
| 289.9
/ NA
| 70 | intergenic (‑7/+299) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (35/35); total (35/35) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GGTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGAAAAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGTTTAA > W3110S.gb/4371204‑4371337
||
ggTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGaa < 1:991149/71‑1 (MQ=255)
ggTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCAAGCAACCTGCATGGCAGaa < 1:2455368/71‑1 (MQ=255)
ggTTACGGCGCAGCAGCTTTTCTGCCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGaa < 1:4510073/71‑1 (MQ=255)
gTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGa < 1:1284239/69‑1 (MQ=255)
ttACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGaaa < 1:3543523/70‑1 (MQ=255)
tACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGaaa > 1:176418/1‑69 (MQ=255)
aCGGCGCAGCAGCTTTTCTGTCTGATGAACCATATAGTCCAGACCGCCAGCAACCTGCATGGCAGaaata < 1:4032316/70‑3 (MQ=255)
cagcagCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGa > 1:289450/1‑71 (MQ=255)
cagcagCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGa < 1:1433622/71‑1 (MQ=255)
agcagcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGAt < 1:4209265/71‑1 (MQ=255)
agcagcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGAt < 1:3167387/71‑1 (MQ=255)
gcagcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATa < 1:3608743/71‑1 (MQ=255)
gcagcTTTTCTGTCTGATGAACC‑‑ATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAAc < 1:2088806/71‑1 (MQ=255)
cagcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGaaa > 1:931361/1‑59 (MQ=255)
agcTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAAc < 1:1826421/71‑1 (MQ=255)
cTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCg < 1:3324362/71‑1 (MQ=255)
cTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCg > 1:856035/1‑71 (MQ=255)
ttCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGc < 1:1074361/69‑1 (MQ=255)
tctttctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCAt > 1:4282408/1‑71 (MQ=255)
tctgtctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCAt > 1:483661/1‑71 (MQ=255)
ctgtctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCAt < 1:1610390/70‑1 (MQ=255)
tctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGc < 1:3206788/64‑1 (MQ=255)
tctgATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGAt < 1:4466293/70‑1 (MQ=255)
tgatgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCAt < 1:1901033/65‑1 (MQ=255)
atgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATaa < 1:672501/68‑1 (MQ=255)
atgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATg < 1:4686240/70‑1 (MQ=255)
atgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATg > 1:3178824/1‑70 (MQ=255)
atgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATg > 1:3408765/1‑70 (MQ=255)
tgaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATg > 1:610281/1‑69 (MQ=255)
gaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAgcggcg > 1:1112359/1‑50 (MQ=255)
gaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAgcggcg > 1:3745995/1‑50 (MQ=255)
gaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATg > 1:4974159/1‑68 (MQ=255)
gaACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATg > 1:3771260/1‑68 (MQ=255)
aaCCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGAt < 1:945504/51‑1 (MQ=255)
aaCCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGgag < 1:733123/70‑1 (MQ=255)
aCCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGaaat < 1:3624064/41‑2 (MQ=255)
aGATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa > 1:1462641/1‑70 (MQ=255)
gATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACa > 1:415453/1‑71 (MQ=255)
gATAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACa > 1:4235751/1‑71 (MQ=255)
aTAGTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACa > 1:1050735/1‑70 (MQ=255)
gTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCg > 1:202538/1‑70 (MQ=255)
gTCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGa < 1:2533536/71‑1 (MQ=255)
tCCAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGAc < 1:2689354/65‑1 (MQ=255)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATaa > 1:647364/1‑53 (MQ=255)
cAGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAAc < 1:1669040/70‑1 (MQ=255)
aGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGaa > 1:3419553/1‑68 (MQ=255)
aGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACgg < 1:357178/71‑1 (MQ=255)
aGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACgg < 1:1910174/71‑1 (MQ=255)
aGACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACgg < 1:2972515/71‑1 (MQ=255)
gACCGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCg < 1:254635/65‑1 (MQ=255)
gACCGCAAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACggg < 1:2148250/71‑1 (MQ=255)
ccGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGAt < 1:1830814/71‑1 (MQ=255)
cGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGAt < 1:5136855/70‑1 (MQ=255)
cGCCAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATg > 1:1899415/1‑71 (MQ=255)
ccAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACgg > 1:2318371/1‑65 (MQ=255)
ccAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGtt < 1:4166957/71‑1 (MQ=255)
ccAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGt > 1:2726710/1‑70 (MQ=255)
cAGCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTa > 1:1919204/1‑71 (MQ=255)
aGCAACCTGCATGGCAG‑‑AAATAGCGGCGCTAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTAc > 1:2868941/1‑71 (MQ=255)
gCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGa > 1:1278580/1‑64 (MQ=255)
gCAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTAcc > 1:2426777/1‑71 (MQ=255)
cAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa > 1:1523234/1‑51 (MQ=38)
cAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa > 1:3096419/1‑51 (MQ=38)
cAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGa > 1:5159816/1‑51 (MQ=38)
cAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACgg < 1:2679550/61‑1 (MQ=255)
cAACCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCg > 1:4903134/1‑71 (MQ=255)
aaCCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATaa > 1:3449069/1‑41 (MQ=37)
aCCTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCggg > 1:1505306/1‑71 (MQ=255)
ccTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCg < 1:3956158/53‑1 (MQ=255)
ccTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCg < 1:588664/53‑1 (MQ=255)
ccTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGt < 1:4083375/71‑1 (MQ=255)
cTGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATaa > 1:4052936/1‑38 (MQ=25)
tGCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCggg < 1:5129856/68‑1 (MQ=255)
gCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGaa > 1:4330828/1‑52 (MQ=38)
gCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACggg < 1:1279655/56‑1 (MQ=255)
gCATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt > 1:5102204/1‑70 (MQ=255)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGttt < 1:3131905/69‑1 (MQ=255)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGTTTaa > 1:2875945/1‑71 (MQ=255)
cATGGCAG‑‑AAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGTTTa < 1:2737630/70‑1 (MQ=255)
||
GGTTACGGCGCAGCAGCTTTTCTGTCTGATGAACCAGATAGTCCAGACCGCCAGCAACCTGCATGGCAGAAAAATAGCGGCGATAACCGCCATGATAATGGAGATGACATCGAACGGGATGTTACCGGGTTTAA > W3110S.gb/4371204‑4371337
|
| 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
