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 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,682,290 |
C→T |
39.1% |
C340C (TGC→TGT) |
ydgI → |
predicted arginine/ornithine antiporter transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,682,290 | 0 | C | T | 39.1%
| 49.9
/ 70.5
| 64 | C340C (TGC→TGT) | ydgI | predicted arginine/ornithine antiporter transporter |
| Reads supporting (aligned to +/- strand): ref base C (10/29); new base T (13/12); total (23/41) |
| Fisher's exact test for biased strand distribution p-value = 3.77e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
CCCGCGCATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCTGACCA > W3110S.gb/1682221‑1682351
|
cccGCGCATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGc > 1:1770022/1‑70 (MQ=255)
cccGCGCATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGc < 1:1826461/70‑1 (MQ=255)
cgcATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGCTGACCAACATCTGCGTGCa < 1:3967785/71‑1 (MQ=255)
cATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCaaa < 1:3112478/71‑1 (MQ=255)
cATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCaaa < 1:1779269/71‑1 (MQ=255)
aTTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAAt > 1:1234584/1‑71 (MQ=255)
tttGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAAttt < 1:2489212/70‑1 (MQ=255)
ttGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGt > 1:4935404/1‑71 (MQ=255)
gcgcCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTgg < 1:390436/71‑1 (MQ=255)
cAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACt < 1:3005071/71‑1 (MQ=255)
aGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTc < 1:3269414/71‑1 (MQ=255)
aGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTc < 1:632208/71‑1 (MQ=255)
aGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACt > 1:107176/1‑70 (MQ=255)
aGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTc < 1:378432/71‑1 (MQ=255)
aGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTc < 1:2102809/71‑1 (MQ=255)
gAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCa < 1:808460/71‑1 (MQ=255)
gAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCa < 1:245665/71‑1 (MQ=255)
aCGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATc > 1:1571903/1‑71 (MQ=255)
gCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTg > 1:1787276/1‑56 (MQ=255)
aGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTa > 1:5139470/1‑58 (MQ=255)
aGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGTTACTCATCTGGCTGa > 1:2865900/1‑71 (MQ=255)
gCTGCGCCATCCGCCTCACTGTGGTTGACCATCATCTGCGTGCAAAttt < 1:1417594/49‑1 (MQ=255)
gCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAAt > 1:4408315/1‑47 (MQ=255)
cTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAAt < 1:2649791/46‑1 (MQ=255)
cTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAAt < 1:1995674/46‑1 (MQ=255)
cTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTgg < 1:2863731/65‑1 (MQ=255)
cTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTgg < 1:1676891/65‑1 (MQ=255)
tGCGCCATCCGCCTCACTTTGGTTGACCAACATCTGCGTGCAAAt < 1:1442060/45‑1 (MQ=255)
ccATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTg < 1:2289494/63‑1 (MQ=255)
cATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTcc < 1:4984616/71‑1 (MQ=255)
tctgCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCg < 1:4775874/67‑1 (MQ=255)
tCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCt < 1:4233033/44‑1 (MQ=255)
tCCGCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGa < 1:2925506/71‑1 (MQ=255)
tCCGCCTCACTGTGGTTGACCAACATCTGCGTGCaaa < 1:4746557/37‑1 (MQ=255)
tCCGCCTCACTGTGGTTGACCAACATCTGCGTGCaaa < 1:5039883/37‑1 (MQ=255)
ccGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTgg < 1:2493092/45‑1 (MQ=255)
cGCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTgg > 1:4940538/1‑44 (MQ=255)
cGCCTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTg > 1:507698/1‑43 (MQ=255)
gCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTa < 1:1910133/71‑1 (MQ=255)
ccTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCg < 1:3016053/66‑1 (MQ=255)
ccTCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCg < 1:395829/66‑1 (MQ=255)
tCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTc < 1:2747144/45‑1 (MQ=255)
tCACTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTc < 1:4390400/45‑1 (MQ=255)
cACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTacaa > 1:3829728/1‑70 (MQ=255)
aCTGTGGTTGACCAACATCTGTTTGCAAATTTGTCTGGTACTCAt > 1:3711666/1‑45 (MQ=255)
aCTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCAt > 1:3834971/1‑45 (MQ=255)
aCTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCAt > 1:2250075/1‑45 (MQ=255)
aCTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTacaaca < 1:2191484/71‑1 (MQ=255)
aCTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTacaa < 1:5140902/69‑1 (MQ=255)
aCTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTacaaca > 1:3987095/1‑71 (MQ=255)
aCTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTacaaca > 1:5139882/1‑71 (MQ=255)
cTGTGGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAacac < 1:2713655/71‑1 (MQ=255)
gtgGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGt > 1:1360497/1‑71 (MQ=255)
tgGTTGACCAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGtt > 1:1218056/1‑71 (MQ=255)
tgGTTGACCAACATCTGCGTGCAAATTTGTCTGGt < 1:1839704/35‑1 (MQ=255)
tgGTTGACCAACATCTGCGTGCAAATTTGTCTGGt > 1:838583/1‑35 (MQ=255)
tgGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGtt > 1:2846486/1‑71 (MQ=255)
tgGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGtt > 1:954995/1‑71 (MQ=255)
gACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTTGCTGACCGGTTCCGATTACAACACGTTGCTg < 1:338477/70‑1 (MQ=255)
gACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCTg < 1:220940/70‑1 (MQ=255)
gACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCTGa > 1:3087007/1‑71 (MQ=255)
aCCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCTGAc < 1:326512/71‑1 (MQ=255)
aCCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCTGAc < 1:1734275/71‑1 (MQ=255)
ccAACATCTGTGTGCAAATTTGTCTGGTACTCATCTGGCTGa > 1:1921918/1‑42 (MQ=255)
cAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCTGACCa < 1:515494/71‑1 (MQ=255)
tCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGAcc < 1:3029184/38‑1 (MQ=255)
|
CCCGCGCATTTTTGCGCGCCAGAACGCACAAGCTGCGCCATCCGCCTCACTGTGGTTGACCAACATCTGCGTGCAAATTTGTCTGGTACTCATCTGGCTGACCGGTTCCGATTACAACACGTTGCTGACCA > W3110S.gb/1682221‑1682351
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
