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 |
1,792,351 |
G→A |
100% |
A245A (GCG→GCA) |
gabT → |
4‑aminobutyrate aminotransferase, PLP‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,792,351 | 0 | G | A | 76.3%
| 48.7
/ 11.1
| 42 | A245A (GCG→GCA) | gabT | 4‑aminobutyrate aminotransferase, PLP‑dependent |
| Reads supporting (aligned to +/- strand): ref base G (3/7); new base A (32/0); total (35/7) |
| Fisher's exact test for biased strand distribution p-value = 4.45e-06 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GTTTACGCGCTCTGTGTGACGAGCACGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCGGGGCGTACCGGCACGCTGTTTGCGATGGAGCAGATGGGCGTTGCGCCGGATCTT > minE/1792287‑1792405
|
gTTTACGCGCTCTGTGTGACGAGCACGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCgggg > 1:3144128/1‑68 (MQ=255)
gTTTACGCGCTCTGTGTGACGAGCACGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCgggg > 1:1919394/1‑68 (MQ=255)
gTTTACGCGCTCTGTGTGACGAGCACGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCgggg > 1:1846490/1‑68 (MQ=255)
ttACGCGCGCTGTGTGACGAGCATGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGt > 1:1062698/1‑69 (MQ=255)
ttACGCGCGCTGTGTGACGAGCATGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGt > 1:2929739/1‑69 (MQ=255)
ttACGCGCGCTGTGTGACGAGCATGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGt > 1:2901738/1‑69 (MQ=255)
ttACGCGCGCTGTGTGACGAGCATGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGt > 1:2896889/1‑69 (MQ=255)
ttACGCGCGCTGTGTGACGAGCATGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGt > 1:602018/1‑69 (MQ=255)
ttACGCGCGCTGTGTGACGAGCATGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGt > 1:1847089/1‑69 (MQ=255)
ttACGCGCGCTGTGTGACGAGCATGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGt > 1:691856/1‑69 (MQ=255)
ttACGCGCGCTGTGTGACGAGCATGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGt > 1:1184958/1‑69 (MQ=255)
ttACGCGCGCTGTGTGACGAGCATGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGt > 1:697782/1‑69 (MQ=255)
ttACGCGCGCTGTGTGACGAGCATGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGt > 1:1128573/1‑69 (MQ=255)
ttACGCGCGCTGTGTGACGAGCATGGGATCATGCTGATTGCCGATGAAGTGCAGAGAGGCGCAGGGCGt > 1:570716/1‑69 (MQ=255)
gcgcTCTGTGTGACGAGCACGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCGGGGCGTAcc < 1:1921857/68‑1 (MQ=255)
tgACGAGCACGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCGGGGCGTACCGGCACGCTGtt > 1:107411/1‑69 (MQ=255)
gAGCACGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCGGGGCGTACCGGCACGCTGTTTGc < 1:1324706/68‑1 (MQ=255)
gAGCACGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCGGGGCGTACCGGCACGCTGTTTGc < 1:2690046/68‑1 (MQ=255)
gATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCGGGGCGTACCGGCACGCTGTTTGCGATGGAGCa < 1:1001511/69‑1 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTg > 1:160990/1‑57 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTg > 1:156861/1‑57 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:417268/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:9055/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:3211270/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:3286170/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:333456/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:3360606/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:337648/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:616693/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:632068/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:3066670/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:3052315/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:2579146/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:2499997/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:2463013/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:2284562/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:228071/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:1597652/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:1544151/1‑58 (MQ=255)
tCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCAGGGCGTACCGGCACGCTGTTTGc > 1:1173621/1‑58 (MQ=255)
cTGATTGCCGATGAAGTGCAGAGCGGCGCGGGGCGTACCGGCACGCTGTTTGCGATGGAGCAGATGGGc > 1:2995635/1‑69 (MQ=255)
cTGATTGCCGATGAAGTGCAGAGCGGCGCGGGGCGTACCGGCACGCTGTTTGCGATGGAGCAGATGGGc > 1:2205786/1‑69 (MQ=255)
tGAAGTGCAGAGCGGCGCGGGGCGTACCGGCACGCTGTTTGCGATGGAGCAGATGGGCGTTGCGCCGGa < 1:2122702/69‑1 (MQ=255)
tGAAGTGCAGAGCGGCGCGGGGCGTACCGGCACGCTGTTTGCGATGGAGCAGATGGGCGTTGCGCCGGa < 1:1128725/69‑1 (MQ=255)
gTGCAGAGCGGCGCGGGGCGTACCGGCACGCTGTTTGCGATGGAGCAGATGGGCGTTGCGCCGGATCtt < 1:375125/69‑1 (MQ=255)
|
GTTTACGCGCTCTGTGTGACGAGCACGGGATCATGCTGATTGCCGATGAAGTGCAGAGCGGCGCGGGGCGTACCGGCACGCTGTTTGCGATGGAGCAGATGGGCGTTGCGCCGGATCTT > minE/1792287‑1792405
|
| 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
