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 R1
|
148 |
22.8 |
1772010 |
97.0% |
1718849 |
61.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,176,396 |
C→T |
72.4% |
M6I (ATG→ATA) |
gatC ← |
galactitol‑specific enzyme IIC component of PTS |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,176,396 | 0 | C | T | 72.4%
| 42.8
/ 17.5
| 29 | M6I (ATG→ATA) | gatC | galactitol‑specific enzyme IIC component of PTS |
| Reads supporting (aligned to +/- strand): ref base C (2/6); new base T (9/12); total (11/18) |
| Fisher's exact test for biased strand distribution p-value = 6.71e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TATTTTAGAAAAAATAATGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAATTTTATTTTGTAATGCTTCGA > W3110S.gb/2176330‑2176460
|
tatTTTAGAAAAAATAATGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCAt < 1:589589/69‑1 (MQ=255)
aaaaTAATGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGTATGACTTCTGaaaa > 1:891240/1‑71 (MQ=255)
aataatGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACa < 1:370495/71‑1 (MQ=255)
ataatGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGTATGACTTCTGAAAACAt < 1:533030/71‑1 (MQ=255)
gaCAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGTATGa > 1:1228481/1‑50 (MQ=255)
cAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGTATGACTTCTGAAAACATAGGTCAcccc > 1:1569815/1‑71 (MQ=255)
tCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGTATGACTTCTGAAAACATa > 1:47659/1‑59 (MQ=255)
ggCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGTATGACTTCTGAAAACATAGGTCACCCCTGTaa < 1:575538/71‑1 (MQ=255)
ggCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACCCATGACTTCTGAAAACATAGGTCACCCCTGTa < 1:1399092/70‑1 (MQ=255)
gcaTCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGaa < 1:665718/47‑1 (MQ=255)
tCACCGTAGGGCCGAGGTCGAGAATATAACGTATGACTTCTGAAAACATAGGTCACCCCTGTAAg < 1:850875/65‑1 (MQ=255)
tCACCGTAGGGCCGAGGTCGAGAATATAACGCATg < 1:1675322/35‑1 (MQ=255)
aCCGTAGGGCCGAGGTCGAGAATATAACGTATGACTTCTGa < 1:471199/41‑1 (MQ=255)
aCCGTAGGGCCGAGGTCGAGAATATAACGTATGACTTCTGAAAACAt < 1:384523/47‑1 (MQ=255)
aCCGTAGGGCCGAGGTCGAGAATATAACGTATGACTTCTGAAAACAt < 1:319920/47‑1 (MQ=255)
aCCGTAGGGCCGAGGTCGAGAATATAACGTATGACTTCTGAAAACATAGGTCACCCCTGTAAGAt > 1:782859/1‑65 (MQ=255)
aCCGTAGGGCCGAGGTCGAGAATATAACGTATGACTTCTGAAAACATAGGTCACCCCTGTAAGAt > 1:1377094/1‑65 (MQ=255)
aCCGTAGGGCCGAGGTCGAGAATATAACGTATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAg < 1:831481/71‑1 (MQ=255)
aGGGCCGAGGTCGAGAATATAACGTATGACTTCTGAAAACa > 1:494460/1‑41 (MQ=255)
aGGCCCGAGGTCGAGAATATAACGTATGACTTCTGAAAACa > 1:1100813/1‑41 (MQ=255)
ggCCGAGGTCGAGAATATAACGTATGACTTCTGAAAACATAg < 1:479171/42‑1 (MQ=255)
aGGTCGAGAATATAACGTATGACTTCTGAAAACATAGGTCAcc < 1:61335/43‑1 (MQ=255)
ataACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAATTTTATTTTGTAATGCTTcga > 1:1235593/1‑71 (MQ=255)
taACGTATGACTTCTGAAAACATAGGTCACCCCTGTAAGa < 1:775251/40‑1 (MQ=255)
aaCGTATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAATTTTATTTTg < 1:76766/58‑1 (MQ=255)
aaCGTATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAATTTTATTTTg < 1:1098209/58‑1 (MQ=255)
aCGTATGACTTCTGAAAACATAGGTCACCCCTGTAAGATa > 1:649573/1‑40 (MQ=255)
gCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATa < 1:1720994/38‑1 (MQ=255)
gCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAatttt > 1:774783/1‑49 (MQ=255)
|
TATTTTAGAAAAAATAATGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAATTTTATTTTGTAATGCTTCGA > W3110S.gb/2176330‑2176460
|
| 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
