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 F3 I0 R1
|
328 |
90.1 |
2317887 |
85.2% |
1974839 |
62.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
531,823 |
G→A |
100% |
I247I (ATC→ATT) |
ybhR ← |
predicted transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 531,823 | 0 | G | A | 79.6%
| 98.5
/ 20.4
| 49 | I247I (ATC→ATT) | ybhR | predicted transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (0/10); new base A (39/0); total (39/10) |
| Fisher's exact test for biased strand distribution p-value = 1.22e-10 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.90e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CGTAAAGTAGAACAGCGCCAGCGATCCGGCGAAGGGGATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGC > minE/531787‑531864
|
cGTAAAGTAGAACAGCGCCAGCGATCCGGCGAAGGGGATTTGATACGCCCAGATACCAATCGCCAGc < 1:875240/67‑1 (MQ=255)
cGTAAAGTAGAACAGCGCCAGCGATCCGGCGAAGGGGATTTGATACGCCCAGATACCAATCGCCAGc < 1:207359/67‑1 (MQ=255)
cGTAAAGTAGAACAGCGCCAGCGATCCGGCGAAGGGGATTTGATACGCCCAGATACCAATCGCCAGc < 1:691709/67‑1 (MQ=255)
cGTAAAGTAGAACAGCGCCAGCGATCCGGCGAAGGGGATTTGATACGCCCAGATACCAATCGCCAGc < 1:2190269/67‑1 (MQ=255)
cGTAAAGTAGAACAGCGCCAGCGATCCGGCGAAGGGGATTTGATACGCCCAGATACCAATCGCCAGc < 1:608723/67‑1 (MQ=255)
cGTAAAGTAGAACAGCGCCAGCGATCCGGCGAAGGGGATTTGATACGCCCAGATACCAATCGCCAGc < 1:1839356/67‑1 (MQ=255)
cGTAAAGTAGAACAGCGCCAGCGATCCGGCGAAGGGGATTTGATACGCCCAGATACCAATCGCCAGc < 1:508378/67‑1 (MQ=255)
cGTAAAGTAGAACAGCGCCAGCGATCCGGCGAAGGGGATTTGATACGCCCAGATACCAATCGCCAGc < 1:2247640/67‑1 (MQ=255)
cGTAAAGTAGAACAGCGCCAGCGATCCGGCGAAGGGGATTTGATACGCCCAGATACCAATCGCCAGc < 1:1611486/67‑1 (MQ=255)
gTAAAGTAGAACAGCGCCAGCGATCCGGCGAAGGGGATTTGATACGCCCAGATACCAATCGCCAGc < 1:172740/66‑1 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:289221/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:2128217/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:2164518/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:2200237/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:2220985/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:2227308/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:2280098/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:287337/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1936637/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:331561/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:489504/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:54682/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:586576/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:637032/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:691318/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:792702/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:877170/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1480232/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1010878/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1023113/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1056706/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1091361/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1156542/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:122105/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1334185/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1363828/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1404023/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:2080651/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1491069/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1605761/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1695385/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1699799/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1744031/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1795233/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:183164/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1885542/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:1904525/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGc > 1:10048/1‑50 (MQ=255)
gCGAAGGGAATTTGATACGCCCAGATACAAATCGCCAGCACAAtggt > 1:1450790/1‑47 (MQ=39)
|
CGTAAAGTAGAACAGCGCCAGCGATCCGGCGAAGGGGATTTGATACGCCCAGATACCAATCGCCAGCACAATGGTGGC > minE/531787‑531864
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
