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 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,806,473 |
G→A |
13.6% |
P198P (CCG→CCA) |
yicI → |
predicted alpha‑glucosidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,806,473 | 0 | G | A | 13.6%
| 181.9
/ 17.3
| 66 | P198P (CCG→CCA) | yicI | predicted alpha‑glucosidase |
| Reads supporting (aligned to +/- strand): ref base G (28/29); new base A (3/6); total (31/35) |
| Fisher's exact test for biased strand distribution p-value = 4.84e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.42e-01 |
GGCCAGACGGTAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCTTTTGAAGTGG > W3110S.gb/3806405‑3806540
|
ggCCAGACGGTAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGt > 1:3409070/1‑70 (MQ=255)
ccAGACGGTAGAGACCTGGAACCGGTACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCt < 1:2820921/71‑1 (MQ=255)
ccAGACGGTAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCt < 1:1423655/71‑1 (MQ=255)
aGACGGTAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTa > 1:4000463/1‑70 (MQ=255)
aGACGGTAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTa > 1:2923996/1‑70 (MQ=255)
aCGGTAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCATTCTACAt < 1:917456/71‑1 (MQ=255)
cGGTAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACAt < 1:2569680/70‑1 (MQ=255)
tAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACt < 1:1307357/71‑1 (MQ=255)
tAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCATTCTACATGACt < 1:2949057/71‑1 (MQ=255)
gaCCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAAcc > 1:2488032/1‑71 (MQ=255)
aCCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAAc < 1:2057281/69‑1 (MQ=255)
aCCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCg > 1:970264/1‑71 (MQ=255)
aCCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCATTCTACATGACTAAcc < 1:4062959/70‑1 (MQ=255)
cTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTAc < 1:4291075/58‑1 (MQ=255)
ggAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGt > 1:1864433/1‑71 (MQ=255)
ggAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGt > 1:2094534/1‑71 (MQ=255)
aCCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTAt < 1:3428702/71‑1 (MQ=255)
ccGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATg > 1:361555/1‑71 (MQ=255)
ccGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATg > 1:4252650/1‑71 (MQ=255)
gggACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACt > 1:279977/1‑56 (MQ=255)
ggACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGt > 1:1366144/1‑64 (MQ=255)
gcggcACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACa > 1:1541747/1‑45 (MQ=255)
cggcACAAGTACTGAAGAGGCGTATAAAAATATCCCGTTCTACATGACTAAcc < 1:1671158/53‑1 (MQ=255)
cggcACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCt < 1:2490273/41‑1 (MQ=255)
gcACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTc < 1:1519970/71‑1 (MQ=255)
gcACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTc < 1:1117383/71‑1 (MQ=255)
cacaAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAAc < 1:722912/49‑1 (MQ=255)
cacaAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCa < 1:4395032/71‑1 (MQ=255)
acaAGTACTGAACAGTCGTATAAAAATATCCCATTCTACATGACTAACCGTGGTTATg < 1:4146706/58‑1 (MQ=255)
acaAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTgg < 1:2639386/53‑1 (MQ=255)
acaAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCaa > 1:366284/1‑71 (MQ=255)
agcaCTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAatca > 1:3256648/4‑71 (MQ=255)
aGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGtt < 1:4502033/52‑1 (MQ=255)
gTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTAt < 1:1409099/53‑1 (MQ=255)
tACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTa < 1:2340589/51‑1 (MQ=255)
tGAACAGGCGTATAAAAATATCCCGTTCTACATGACTa < 1:1965907/38‑1 (MQ=255)
gAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATccc > 1:1232308/1‑69 (MQ=255)
aaCAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATgggg > 1:2959666/1‑51 (MQ=255)
aaCAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATgggg > 1:715237/1‑51 (MQ=255)
aaCAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAg > 1:1723469/1‑71 (MQ=255)
aaCAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAg < 1:1156700/71‑1 (MQ=255)
aaCAGGCGTATAAAAATATCCCATTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAg > 1:3036984/1‑71 (MQ=255)
cAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTAc > 1:928055/1‑52 (MQ=255)
cAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTAc > 1:1331393/1‑52 (MQ=255)
aGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAgtgt > 1:1598920/1‑71 (MQ=255)
aGGCGTATAAAAATATCCCATTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAgtgt < 1:977145/71‑1 (MQ=255)
cGTATAAAAATATCCCATTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGtc < 1:817637/71‑1 (MQ=255)
tataAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGtctc < 1:4207596/71‑1 (MQ=255)
tataAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGtctc < 1:3308065/71‑1 (MQ=255)
taAAAATATCCCGTTCTACATGACTAACCGTGGTTa < 1:3424266/36‑1 (MQ=255)
taAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTctct < 1:4214598/70‑1 (MQ=255)
taAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCtt > 1:3584495/1‑71 (MQ=255)
taAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCtt > 1:3988732/1‑71 (MQ=255)
aaaaaTATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATcccc < 1:4223166/58‑1 (MQ=255)
aaaaTATCCCGTTCTACATGACTAACCGTGGTTATgg > 1:315136/1‑37 (MQ=255)
aaaaTATCCCGTTCTACATGACTAACCGTGGTTATg > 1:1733543/1‑36 (MQ=255)
aaaaTATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCtttt < 1:3932069/71‑1 (MQ=255)
aaaaTATCCCATTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCtttt > 1:834914/1‑71 (MQ=255)
aaaTATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAatcatc > 1:2910050/1‑53 (MQ=255)
aaaTATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAgtgt < 1:1159404/61‑1 (MQ=255)
aaaTATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCtttt > 1:2079431/1‑70 (MQ=255)
aaaTATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCTTTTg < 1:1368113/71‑1 (MQ=255)
atatCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCTTTTg > 1:3014332/1‑69 (MQ=255)
tCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCTTTTGAAGt < 1:502574/70‑1 (MQ=255)
cccATTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCTTTTGAAGTgg > 1:69136/1‑71 (MQ=255)
cGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCttt < 1:2202604/61‑1 (MQ=255)
|
GGCCAGACGGTAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCTTTTGAAGTGG > W3110S.gb/3806405‑3806540
|
| 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
