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 |
|
A73 F1 I1 R1
|
21 |
62.0 |
3993596 |
96.1% |
3837845 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,134,767 |
(A)5→4 |
intergenic (‑59/‑95) |
argE ← / → argC |
acetylornithine deacetylase/N‑acetyl‑gamma‑glutamyl‑phosphate reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,134,763 | 0 | A | . | 91.0%
| 262.5
/ 24.4
| 67 | intergenic (‑55/‑99) | argE/argC | acetylornithine deacetylase/N‑acetyl‑gamma‑glutamyl‑phosphate reductase |
| Reads supporting (aligned to +/- strand): ref base A (5/1); new base . (33/28); total (38/29) |
| Fisher's exact test for biased strand distribution p-value = 2.24e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.00e-01 |
GGCGGTAATTTGTTTTTCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAATAAAAATACACTAACGTTGAGCGTAATAAAACCCACCAGCCGTAAGGTGAATGTTTTACGTTTAACCTGGCA > REL606/4134689‑4134833
|
ggCGGTAATTTGTTTTTCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAATaa < 2:1615256/76‑1 (MQ=255)
gCGGTAATTTGTTTTTCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAATaaa > 2:827484/1‑76 (MQ=255)
tAATTTGTTTTTCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAATaaaatct < 1:377920/76‑4 (MQ=255)
tAATTTGTTTTTCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAATAAAAATa > 2:1991665/1‑76 (MQ=255)
tttGTTTTTCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaac > 1:1438628‑M1/1‑71 (MQ=255)
ttGTTTTTCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacg < 1:1422292‑M1/76‑7 (MQ=255)
tGTTTTTCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgt > 1:80172‑M1/1‑69 (MQ=255)
tttttCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAATAAAAATACACTAAc > 1:1348900/1‑76 (MQ=255)
tttttCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttg < 1:617602‑M1/76‑10 (MQ=255)
tttttCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttg > 1:293631‑M1/1‑67 (MQ=255)
tttttCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttg < 1:1639394‑M1/76‑10 (MQ=255)
ttttCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttga < 1:1144604‑M1/76‑11 (MQ=255)
tttCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgag < 1:748722‑M1/76‑12 (MQ=255)
ttCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagc > 2:1497434‑M1/1‑64 (MQ=255)
cATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgt > 1:477330‑M1/1‑62 (MQ=255)
cATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgt > 1:301569‑M1/1‑62 (MQ=255)
cATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgt < 1:1766907‑M1/76‑15 (MQ=255)
cATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgt > 1:275971‑M1/1‑62 (MQ=255)
aTTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgta > 1:1376599‑M1/1‑61 (MQ=255)
ttgttgACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaa < 1:1390‑M1/76‑17 (MQ=255)
ttgttgACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaa < 1:429465‑M1/76‑17 (MQ=255)
ttgttgACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaa < 1:335639‑M1/76‑17 (MQ=255)
ttgttgACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaa > 2:75044‑M1/1‑60 (MQ=255)
gttgACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaata < 1:1101254‑M1/76‑19 (MQ=255)
tgACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaa > 1:907928‑M1/1‑56 (MQ=255)
gACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaa > 1:643740‑M1/1‑55 (MQ=255)
acacacCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaac > 2:815485‑M1/1‑54 (MQ=255)
cacacCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacc < 1:118760‑M1/76‑24 (MQ=255)
acacCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaaccc > 1:1907101‑M1/1‑52 (MQ=255)
acacCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaaccc > 1:1067767‑M1/1‑52 (MQ=255)
ctctGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccacca < 1:1956965‑M1/76‑29 (MQ=255)
tctGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccag < 2:623776‑M1/76‑30 (MQ=255)
ctGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagc > 1:250065‑M1/1‑46 (MQ=255)
tGGTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagcc < 1:1416440‑M1/76‑32 (MQ=255)
gTCATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgt > 2:320827‑M1/1‑43 (MQ=255)
cATGATAGTATCAATATTCATGCAGTATTTATGAATAAAAATACACTAACGTTGAGCGTAATAAAACCCACCAGcc < 1:1198/76‑1 (MQ=255)
cATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaa > 1:388369‑M1/1‑41 (MQ=255)
cATGATAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaa < 2:645072‑M1/76‑36 (MQ=255)
tGATAGTATCAATATTCATGCAGTATTTATGAATAAAAATACACTAACGTTGAGCGTAATAAAACCCACCAGCCGt > 1:556200/1‑76 (MQ=255)
aTAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtg > 1:829617‑M1/1‑37 (MQ=255)
tAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtga > 1:788739‑M1/1‑36 (MQ=255)
tAGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtga > 1:788743‑M1/1‑36 (MQ=255)
aGTATCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaa > 2:1199298‑M1/1‑35 (MQ=255)
aTCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgt > 2:1099917‑M1/1‑32 (MQ=255)
aTCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgt < 2:1302450‑M1/76‑45 (MQ=255)
aTCAATATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgt > 1:1637385‑M1/1‑32 (MQ=255)
aaTATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaccccaccagccgtaaggtgaatgtttt < 2:1035717‑M1/76‑48 (MQ=255)
aaTATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgtttt < 2:1273686‑M1/76‑48 (MQ=255)
aaTATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgtttt < 1:824720‑M1/76‑48 (MQ=255)
aaTATTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgtttt > 2:1803159‑M1/1‑29 (MQ=255)
atatTCATTCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaccccaccagccgtaaggtgaatgtttta < 2:114622‑M1/76‑49 (MQ=255)
atatTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaaccccccagccgtaaggtgaatgtttta < 1:1355883‑M1/76‑49 (MQ=255)
atatTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgtttta < 2:1485962‑M1/76‑49 (MQ=255)
tatTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgttttac > 1:940424‑M1/1‑27 (MQ=255)
tatTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgttttac > 2:32124‑M1/1‑27 (MQ=255)
tatTCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgttttac > 1:16479‑M1/1‑27 (MQ=255)
atTCATGCAGTATTTATGAATAAAAATACACTAACGTTGAGCGTAATAAAACCCACCAGCCGTAAGGTGAATGttt > 1:1418342/1‑76 (MQ=255)
tCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaccccaccagccgtaaggtgaatgttttacgtt < 1:1497434‑M1/76‑53 (MQ=255)
tCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaccccaccagccgtaaggtgaatgttttacgtt < 2:434812‑M1/76‑53 (MQ=255)
tCATGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgttttacgtt > 2:1684534‑M1/1‑24 (MQ=255)
aTGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgttttacgttta > 1:1420459‑M1/1‑22 (MQ=255)
aTGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgttttacgttta > 1:1420442‑M1/1‑22 (MQ=255)
aTGCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgttttacgctta > 1:1420456‑M1/1‑22 (MQ=255)
gCAGTATTTATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgttttacgtttaac < 2:173629‑M1/76‑57 (MQ=255)
aGTATTTATGAAT‑AAAATctaacgttgagcgtaataaacccccccagccgtaaggtgaatgttttacgtttaacct < 2:491004‑M1/76‑59 (MQ=255)
tttATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgttttacgtttaacctggca > 1:3642‑M1/1‑14 (MQ=255)
ttATGAATAAAAATACACTAACGTTGAGCGTAATAAAACCCACCAGCCGTAAGGTGAATGTTTTACGTTTAACCTg > 1:1748125/1‑76 (MQ=255)
ttATGAAT‑AAAATctaacgttgagcgtaataaaccccaccagccgtaaggtgaatgttttacgtttaacctggcaa < 2:618444‑M1/76‑64 (MQ=255)
ttATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgttttacgtttaacctggcaa > 1:1478063‑M1/1‑13 (MQ=255)
tATGAAT‑AAAATctaacgttgagcgtaataaaacccaccagccgtaaggtgaatgttttacgtttaacctggcaac < 2:1818221‑M1/76‑65 (MQ=255)
aTGAAT‑AAAATctaacgttgagcgtaaaaaaccccaccagccgtaaggtgaatgttttacgtttaacctggcaacc < 2:424763‑M1/76‑66 (MQ=255)
|
GGCGGTAATTTGTTTTTCATTGTTGACACACCTCTGGTCATGATAGTATCAATATTCATGCAGTATTTATGAATAAAAATACACTAACGTTGAGCGTAATAAAACCCACCAGCCGTAAGGTGAATGTTTTACGTTTAACCTGGCA > REL606/4134689‑4134833
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
