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 |
|
A3 F1 I2 R1
|
777 |
59.2 |
2955938 |
92.5% |
2734242 |
106.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,571,332 |
G→T |
I238I (ATC→ATA) |
gadB ← |
glutamate decarboxylase B, PLP‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,571,332 | 0 | G | T | 97.1%
| 75.5
/ ‑6.1
| 34 | I238I (ATC→ATA) | gadB | glutamate decarboxylase B, PLP‑dependent |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base T (14/19); minor base C (0/1); total (14/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGACCGAATTTATGGCCTGAAGCACTGATCGATTTCACACGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCGATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCAGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATG > NC_000913/1571210‑1571467
|
aGACCGAATTTATGGCCTGAAGCACTGATCGATTTCACACGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTAt < 1:1415825/139‑1 (MQ=14)
aCCGAATTTATGGCCTGAAGCACTGATCGATTTCACACGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCg < 1:6259/139‑1 (MQ=18)
gAATTTATGGCCTGAAGCACTGATCGATTTCACACGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGcc < 2:1032650/139‑1 (MQ=17)
aTGGCCTGAAGCACTGATCGATTTCACACGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAAt < 2:194435/139‑1 (MQ=17)
ggCCTGAAGCACTGATCGATTTCACACGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAAttt > 1:357188/1‑139 (MQ=17)
aaGCACTGATCGATTTCACACGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGcc < 2:483031/125‑1 (MQ=18)
aaGCACTGATCGATTTCACACGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGcc > 1:483031/1‑125 (MQ=17)
cTGATCGATTTCACACGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCAt < 2:825757/139‑1 (MQ=18)
gATTTCACACGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCa > 1:821189/1‑139 (MQ=17)
cacaCGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAgcgc < 1:1330087/126‑1 (MQ=17)
cacaCGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAgcgc > 2:1330087/1‑126 (MQ=17)
cacaCGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGt > 1:1044658/1‑139 (MQ=17)
cacGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCt > 2:1457544/1‑108 (MQ=17)
cacGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCt < 1:1457544/108‑1 (MQ=17)
cacGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCCATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGt < 1:905569/137‑1 (MQ=18)
cacGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGCGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGt > 2:905569/1‑137 (MQ=18)
cgcgGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTtgtg < 1:1459086/139‑1 (MQ=18)
cgcgACAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTtgtg < 2:1088047/139‑1 (MQ=16)
gcgGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTgg < 1:373565/139‑1 (MQ=17)
gCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGaa > 2:817346/1‑139 (MQ=18)
cAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAAc < 1:1391647/139‑1 (MQ=17)
tCCCAGACGATATCCGGGGCGACGCACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTAc < 2:821189/139‑1 (MQ=12)
tCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTAc > 1:993775/1‑139 (MQ=17)
cAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGcc < 2:1243132/87‑1 (MQ=25)
cAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGcc > 1:1243132/1‑87 (MQ=25)
aGACGATATCCGGGGCGACGAACGGTGCCAGGAATCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCAgt > 1:1020563/1‑139 (MQ=255)
gCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAAc < 2:1364250/111‑1 (MQ=18)
gCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAAc > 1:1364250/1‑111 (MQ=18)
gacgaACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCAGTGTAGGTCACGCCGaaa > 1:557706/1‑139 (MQ=25)
gTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCAGTGTAGGTCACGCCGAAAGTCGGcac < 2:1043288/139‑1 (MQ=25)
aaGCCACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCAGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGa < 2:993775/139‑1 (MQ=25)
ccACCGCTGGCAGCGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCAGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATgg > 1:1408742/1‑139 (MQ=25)
cGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCAGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTcaca < 2:557706/139‑1 (MQ=25)
cGTCGATGTGCATGTCTATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCAGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTcaca < 2:304513/139‑1 (MQ=37)
gtctatgtcgatACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCAGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATg > 1:1432830/1‑139 (MQ=25)
|
AGACCGAATTTATGGCCTGAAGCACTGATCGATTTCACACGCGGCAGGCGGAAGTCCCAGACGATATCCGGGGCGACGAACGGTGCCAGGAAGCCACCGCTGGCAGCGTCGATGTGCATGTCGATGTCGATACCGGTATCGGCCTGGAATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCAGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATG > NC_000913/1571210‑1571467
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
