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 |
2,176,396 |
C→T |
10.0% |
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 | 10.0%
| 150.5
/ 6.4
| 50 | M6I (ATG→ATA) | gatC | galactitol‑specific enzyme IIC component of PTS |
| Reads supporting (aligned to +/- strand): ref base C (23/22); new base T (2/3); total (25/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.61e-01 |
TAATATTTTAGAAAAAATAATGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAATTTTATTTTGTAATGCTTCGATACCGA > W3110S.gb/2176327‑2176466
|
tAATATTTTAGAAAAAATAATGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCa > 1:322469/1‑71 (MQ=255)
tatTTTAGAAAAAATAATGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCAt < 1:3287615/69‑1 (MQ=255)
ttttAGAAAAAATAATGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGAc < 1:1817500/70‑1 (MQ=255)
tAGAAAAAATAATGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGTATGACTTCt > 1:2319318/1‑71 (MQ=255)
aGAAAAAATAATGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCt < 1:3304500/70‑1 (MQ=255)
gAAAAAATAATGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCt < 1:862076/69‑1 (MQ=255)
aaaaaaTAATGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGaa < 1:1389348/71‑1 (MQ=255)
aaaaaTAATGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGaa > 1:2563151/1‑70 (MQ=255)
aaaaaTAATGATGACAATCGGCACCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGaa < 1:1129427/70‑1 (MQ=255)
aaaaTAATGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGaaaa > 1:2993428/1‑71 (MQ=255)
aataatGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACa < 1:3539069/71‑1 (MQ=255)
aataatGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACa > 1:3524238/1‑71 (MQ=255)
ataatGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGTATGACTTCTGAAAACAt < 1:1372606/71‑1 (MQ=255)
ataatGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGAc > 1:3929064/1‑59 (MQ=255)
taatGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATa < 1:4429274/71‑1 (MQ=255)
aatGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAg > 1:3819795/1‑71 (MQ=255)
atgatgACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAgg > 1:2423222/1‑71 (MQ=255)
atgatgACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAg < 1:416897/70‑1 (MQ=255)
aaTCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTg < 1:2003615/53‑1 (MQ=255)
tCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAg > 1:3842335/1‑60 (MQ=255)
cGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACAt > 1:26255/1‑57 (MQ=255)
cGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACAt > 1:3419062/1‑57 (MQ=255)
ggCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGTAt < 1:1724402/41‑1 (MQ=255)
gcagcaTCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAg < 1:2148858/71‑1 (MQ=255)
caTCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACAt < 1:3663933/51‑1 (MQ=255)
caTCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAg < 1:3538573/71‑1 (MQ=255)
caTCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAg < 1:789394/71‑1 (MQ=255)
aTCACCGTAGGGCCTAGGTCGAGAATATAACGTATGACTTCTGaaa < 1:1185530/46‑1 (MQ=255)
tCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACt < 1:4563643/38‑1 (MQ=255)
tCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGt > 1:2628087/1‑70 (MQ=255)
cACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGaaaa < 1:3708812/45‑1 (MQ=255)
cACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGt > 1:2472390/1‑69 (MQ=255)
aCCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACAt > 1:1239529/1‑47 (MQ=255)
ccGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGa > 1:3664190/1‑63 (MQ=255)
gggCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAatttt < 1:2647448/71‑1 (MQ=255)
cGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAg < 1:4520362/53‑1 (MQ=255)
cGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAattttattt < 1:1291244/71‑1 (MQ=255)
cGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAattttattt > 1:1621200/1‑71 (MQ=255)
ggTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTaa < 1:1801756/49‑1 (MQ=255)
gTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAATTTTATTTTGt > 1:3639063/1‑70 (MQ=255)
cGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAATTTTATTTTGTAAt > 1:3856105/1‑71 (MQ=255)
gagaATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAATTTTATTTTGTAATg > 1:1016207/1‑71 (MQ=255)
gaATATAACGTATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCa > 1:3784886/1‑51 (MQ=255)
gaATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAATTTTATTTTGTAATGCt > 1:3448087/1‑71 (MQ=255)
gaATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAATTTTATTTTGTAATGCt > 1:2985448/1‑71 (MQ=255)
gaATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAATTTTATTTTGTAATGCt > 1:949859/1‑71 (MQ=255)
taACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAattttattt > 1:2074690/1‑57 (MQ=255)
taACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAattttatt > 1:3487657/1‑56 (MQ=255)
aCGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAattt < 1:15054/50‑1 (MQ=255)
gCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAATTTTATTTTGTAATGCTTcgataccg < 1:996981/71‑1 (MQ=255)
cATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAATTTTATTTTGTAATGCTTcgataccga < 1:579307/71‑1 (MQ=255)
|
TAATATTTTAGAAAAAATAATGATGACAATCGGCAGCATCACCGTAGGGCCGAGGTCGAGAATATAACGCATGACTTCTGAAAACATAGGTCACCCCTGTAAGATAGTCAGAATTTTATTTTGTAATGCTTCGATACCGA > W3110S.gb/2176327‑2176466
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
