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 |
|
A6 F1 I1 R1
|
20 |
51.0 |
3438118 |
91.8% |
3156192 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,179,757 |
T→G |
intergenic (+51/‑136) |
yjaG → / → hupA |
hypothetical protein/HU, DNA‑binding transcriptional regulator, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,179,757 | 0 | T | G | 95.8%
| 185.3
/ ‑3.9
| 48 | intergenic (+51/‑136) | yjaG/hupA | hypothetical protein/HU, DNA‑binding transcriptional regulator, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (0/2); new base G (26/20); total (26/22) |
| Fisher's exact test for biased strand distribution p-value = 2.05e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.91e-01 |
TGGTATAATTTTTCAGCAATAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCTTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGGAGAGTG > REL606/4179685‑4179828
|
tGGTATAATTTTTCAGCAATAAGACCAGAAAACGTGATTTAACTCCTGATTTGTCGTACCTGGAGTCTTCCCGTTc < 2:672598/76‑1 (MQ=255)
tGGTATAATTTTTCAGCAATAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCTTTc < 2:572493/76‑1 (MQ=255)
tgTATAATTTTTCAGCAATAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCg > 2:709150/2‑76 (MQ=255)
tgTATAATTTTTCAGCAATAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTAGAGTCTTCCCGTTCg > 2:841717/2‑76 (MQ=255)
gTATAATTTTTCAGCAATAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGc > 2:1564301/1‑76 (MQ=255)
ataATTTTTCAGCAATAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGccc > 1:1037448/1‑76 (MQ=255)
aagttttCAGCAATAAGACCAGAAAACGTGATGTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGccccc < 2:1260642/73‑1 (MQ=255)
aTTTTTCAGCAATAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGcccccc > 1:1071106/1‑76 (MQ=255)
tttttCAGCAATAANACCAGAAAAAGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCg > 1:238/1‑76 (MQ=255)
tttttCAGCAATAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCg < 2:892442/76‑1 (MQ=255)
cAGCAATAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGCCTgg > 1:843703/1‑76 (MQ=255)
cAATAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCt > 2:803379/1‑76 (MQ=255)
cAATAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCt > 2:444524/1‑76 (MQ=255)
cAATAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGCCTGGTCt > 2:1179685/1‑76 (MQ=255)
aaTAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTa < 1:1267844/76‑1 (MQ=255)
aaTAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTa > 2:1604013/1‑76 (MQ=255)
aaTAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTa > 2:1542727/1‑76 (MQ=255)
gACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACAttt < 1:928971/76‑1 (MQ=255)
gACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACAttt < 2:641566/76‑1 (MQ=255)
ccAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTgg > 2:578278/1‑76 (MQ=255)
aaaaCGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTgggggg < 2:1544118/76‑1 (MQ=255)
aaCGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCg > 2:329953/1‑76 (MQ=255)
ttAACGCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAg < 2:1015829/76‑1 (MQ=255)
gCCTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCt < 2:585638/76‑1 (MQ=255)
cttaTTTGTCGTCCCTGGACTCTCCCCTTCCCCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTAt < 1:775343/73‑1 (MQ=255)
cTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTAt > 2:166050/1‑76 (MQ=255)
cTGATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTAt < 1:1632251/76‑1 (MQ=255)
cTGATTTGTCGTACATGCACTCATCCCGTTCGCCCCCCGTCTGGTCTACATTTGGTGGGCGAAAAAAAGTGGCTAt < 1:86267/76‑1 (MQ=255)
gATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCg > 2:1151806/1‑76 (MQ=255)
gATTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCg > 2:571435/1‑76 (MQ=255)
aTTTGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCgg < 1:1634684/76‑1 (MQ=255)
ttGTCGTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTg > 1:1201814/1‑76 (MQ=255)
gTACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCgtgt > 1:1027441/1‑76 (MQ=255)
tACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTa < 2:1326326/76‑1 (MQ=255)
tACCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTa < 2:1071391/76‑1 (MQ=255)
aCCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTAt < 2:298297/76‑1 (MQ=255)
aCCTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTAt < 2:1085644/76‑1 (MQ=255)
cTGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGc < 2:434466/76‑1 (MQ=255)
cTGGAGTCTTCCCGTTCGCCCCCCGACTGATCTACTTTTGCCCGGCGATAAGAAGTCACTTTTCTTGNGTGTATGc > 2:279669/1‑76 (MQ=255)
tGGNGTCTTCCCGTTCGCCCCCCGTCTGGTCTTCATTTGGGGGGCGAAAAAAAGTGGCTATCGGGGCGTGTATGCa > 1:1532631/1‑76 (MQ=255)
tGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCa < 1:1204729/76‑1 (MQ=255)
tGGAGTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCa > 1:749321/1‑76 (MQ=255)
gAGTCTTCCCTTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAgg < 2:1555443/76‑1 (MQ=255)
gAGTCTCCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAgg < 2:832913/76‑1 (MQ=255)
gTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGgag < 2:201271/76‑1 (MQ=255)
gTCTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGgag < 1:983880/76‑1 (MQ=255)
cTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGGagag > 2:121139/1‑76 (MQ=255)
cTTCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGGagag > 2:582459/1‑76 (MQ=255)
ttCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGGAGAGt < 2:849638/76‑1 (MQ=255)
tCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGGagaggg > 2:324834/1‑74 (MQ=255)
tCCCGTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGCGGCTATCGGTGCGTGTATGCAGGAGGGTg > 2:1621575/1‑76 (MQ=255)
|
TGGTATAATTTTTCAGCAATAAGACCAGAAAACGTGATTTAACGCCTGATTTGTCGTACCTGGAGTCTTCCCTTTCGCCCCCCGTCTGGTCTACATTTGGGGGGCGAAAAAAAGTGGCTATCGGTGCGTGTATGCAGGAGAGTG > REL606/4179685‑4179828
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
