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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,668,958 |
T→G |
51.5% |
G112G (GGT→GGG) |
malP → |
maltodextrin phosphorylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,668,958 | 0 | T | G | 51.5%
| 10.0
/ 71.3
| 66 | G112G (GGT→GGG) | malP | maltodextrin phosphorylase |
| Reads supporting (aligned to +/- strand): ref base T (21/11); new base G (16/18); total (37/29) |
| Fisher's exact test for biased strand distribution p-value = 1.45e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTTATGACATCAATCTGACGGACCTGCTGGAAGAAGAGATCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGTC > minE/2668903‑2669012
|
cTTATGACATCAATCTGACGGACCTGCTGGAAGAAGAGATCGACCCGGCGCTGGGTAACGGTGGTCTgg < 1:2984545/69‑1 (MQ=255)
cTTATGACATCAATCTGACGGACCTGCTGGAAGAAGAGATCGACCCGGCGCTGGGTAACGGTGGTCTgg < 1:2440514/69‑1 (MQ=255)
cTTATGACATCAATCTGACGGACCTGCTGGAAGAAGAGATCGACCCGGCGCTGGGTAACGGTGGTCTgg < 1:1696829/69‑1 (MQ=255)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACgg > 1:3399072/1‑52 (MQ=255)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACGGTGGTCTgg > 1:394976/1‑60 (MQ=255)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTgg > 1:2316240/1‑69 (MQ=38)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTgg > 1:2788214/1‑69 (MQ=38)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTgg > 1:228868/1‑69 (MQ=38)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTgg > 1:1727355/1‑69 (MQ=38)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTgg > 1:3302335/1‑69 (MQ=38)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTgg > 1:2305251/1‑69 (MQ=38)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTgg > 1:2774253/1‑69 (MQ=38)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTgg > 1:2396242/1‑69 (MQ=38)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTgg > 1:146719/1‑69 (MQ=38)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTgg > 1:415492/1‑69 (MQ=38)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTgg > 1:775628/1‑69 (MQ=38)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTgg > 1:1327124/1‑69 (MQ=38)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTgg > 1:908233/1‑69 (MQ=38)
tCAACCTGACTGACCTGTTGGAAGAAGAGATCGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTg > 1:2032967/1‑68 (MQ=255)
cTGACGGACCTGCTGGAAGAAGAGATCGACCCGGCGCTGGGTAACGGTGGTCt > 1:2093861/1‑53 (MQ=255)
cTGACGGACCTGCTGGAAGAAGAGATCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTggcggc > 1:2080996/1‑68 (MQ=255)
cTGACGGACCTGCTGGAAGAAGAGATCGACCCGGCGCTGGGTAACGGTGGACTGGGACGTCTgg > 1:268265/1‑64 (MQ=255)
ccTGCTGGAAGAAGAGATCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGTGCt > 1:3329031/1‑65 (MQ=255)
ccTGCTGGAAGAAGAGATCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGTGCt > 1:2490389/1‑65 (MQ=255)
ccTGCTGGAAGAAGAGATCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGTGCt > 1:1864458/1‑65 (MQ=255)
ggAAGAAGAGATCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTc > 1:3272042/1‑69 (MQ=255)
ggAAGAAGAGATCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTc > 1:2157809/1‑69 (MQ=255)
agaagaGATCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAAt < 1:1578326/69‑1 (MQ=255)
agaagaGATCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAAt < 1:802237/69‑1 (MQ=255)
agaagaGATCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAAt < 1:1268625/69‑1 (MQ=255)
gaagaGATCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTc > 1:2080344/1‑65 (MQ=255)
gaagaGATCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTc < 1:3354730/65‑1 (MQ=255)
gaagaGATCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTc > 1:3400941/1‑65 (MQ=255)
aagaGATCGACCCGGCGCTGGGTAACGGTTGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTc < 1:1607216/64‑1 (MQ=255)
gagaTCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGt > 1:2943862/1‑49 (MQ=255)
gagaTCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGt > 1:1125423/1‑49 (MQ=255)
gagaTCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGt > 1:2717881/1‑49 (MQ=255)
gagaTCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGt > 1:925839/1‑49 (MQ=255)
gagaTCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGt > 1:2358094/1‑49 (MQ=255)
gagaTCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGt > 1:1305457/1‑49 (MQ=255)
gagaTCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGt > 1:1379072/1‑49 (MQ=255)
gagaTCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGt > 1:1508591/1‑49 (MQ=255)
gagaTCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGt > 1:1689459/1‑49 (MQ=255)
gagaTCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGt > 1:1603952/1‑49 (MQ=255)
gagaTCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGt > 1:2564093/1‑49 (MQ=255)
gagaTCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCa < 1:1010379/69‑1 (MQ=255)
gagaTCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCa < 1:2113785/69‑1 (MQ=255)
agaTCGACCCGGCGCTGGGTAACGGTGTTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCa < 1:348721/68‑1 (MQ=255)
cGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGt < 1:1544793/69‑1 (MQ=255)
cGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGt < 1:990753/69‑1 (MQ=255)
cGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGt < 1:696264/69‑1 (MQ=255)
cGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGt < 1:1379961/69‑1 (MQ=255)
cGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGt < 1:374988/69‑1 (MQ=255)
cGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGt < 1:1672163/69‑1 (MQ=255)
cGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGt < 1:185356/69‑1 (MQ=255)
cGACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGt < 1:2856922/69‑1 (MQ=255)
cGACCCGGCGCTGGGGAACGGTGGGCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGt < 1:3149847/69‑1 (MQ=255)
gACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCACTGGCAACTGTc < 1:1164305/69‑1 (MQ=255)
gACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGTc < 1:1724003/69‑1 (MQ=255)
gACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGTc < 1:3159480/69‑1 (MQ=255)
gACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGTc < 1:644968/69‑1 (MQ=255)
gACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGTc < 1:700714/69‑1 (MQ=255)
gACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGTc < 1:1971166/69‑1 (MQ=255)
gACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGTc < 1:215778/69‑1 (MQ=255)
gACCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGTc < 1:994335/69‑1 (MQ=255)
aCCCGGCGCTGGGGAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGTc < 1:3087095/68‑1 (MQ=255)
|
CTTATGACATCAATCTGACGGACCTGCTGGAAGAAGAGATCGACCCGGCGCTGGGTAACGGTGGTCTGGGACGTCTGGCGGCGTGCTTCCTCGACTCAATGGCAACTGTC > minE/2668903‑2669012
|
| 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
