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 |
|
A4 F1 I1 R1
|
73 |
24.7 |
1166784 |
93.9% |
1095610 |
107.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
606,927 |
C→T |
G153S (GGC→AGC) |
ybdK ← |
weak gamma‑glutamyl:cysteine ligase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 606,927 | 0 | C | T | 96.2%
| 79.0
/ ‑3.8
| 26 | G153S (GGC→AGC) | ybdK | weak gamma‑glutamyl:cysteine ligase |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (11/14); total (11/15) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
CGGCATCGGGCCATTATCAGGAAAGGCGGAAAAAATATTCGGTCGTGAGGAGGCAAAACGCGTATCCGTTCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCCGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAGCCAACATGGACATGCTGACCAAAAACGGTCGCCTGCTGAATGAGATAACCAAAGTTTTCCAGCGTGCGTTGATAGCGTT > NC_000913/606796‑607043
|
cGGCATCGGGCCATTATCAGGAAAGGCGGAAAAAATATTCGGTCGTGAGGAGGCAAAACGCGTATCCGTTCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTgcagc > 2:515007/1‑139 (MQ=255)
cGGCATCGGGCCATTATCAGGAAAGGCGGAAAAAATATTCGGTCGTGAGGAGGCAAAACGCGTATCCGTTCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTgcag > 1:123050/1‑138 (MQ=255)
cGGCATCGGGCCATTATCAGGAAAGGCGGAAAAAATATTCGGTCGTGAGGAGGCAAAACGCGTATCCGTTCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTgcag < 2:123050/138‑1 (MQ=255)
cATTATCAGGAAAGGCGGAAAAAATATTCGGTCGTGAGGAGGCAAAACGCGTATCCGTTCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTgc > 1:124803/1‑125 (MQ=255)
cATTATCAGGAAAGGCGGAAAAAATATTCGGTCGTGAGGAGGCAAAACGCGTATCCGTTCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTgc < 2:124803/125‑1 (MQ=255)
cATTATCAGGAAAGGCGGAAAAAATATTCGGTCGTGAGGAGGCAAAACGCGTATCCGTTCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGc < 1:391910/139‑1 (MQ=255)
tCAGGAAAGGCGGAAAAAATATTCGGTCGTGAGGAGGCAAAACGCGTATCCGTTCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCAt < 1:515007/139‑1 (MQ=255)
gCGGAAAAAATATTCGGTCGTGAGGAGGCAAAACGCGTATCCGTTCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCACTgg > 1:179422/1‑139 (MQ=255)
cGGAAAAAATATTCGGTCGTGAGGAGGCAAAACGCGTATCCGTTCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCCTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCa < 2:54051/134‑1 (MQ=255)
cGGAAAAAATATTCGGTCGTGAGGAGGCAAAACGCGTATCCGTTCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCCTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCa > 1:54051/1‑134 (MQ=255)
aaaTATTCGGTCGTGAGGAGGCAAAACGCGTATCCGTTCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAAGCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAGcc < 1:458681/139‑1 (MQ=255)
tATCCGTTCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCCGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAGCCAACATGGACATGCTGACCAAAAACGGTCGc < 2:352015/139‑1 (MQ=255)
tCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAg > 2:549596/1‑100 (MQ=255)
tCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAg < 1:549596/100‑1 (MQ=255)
tCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAGCCAACATGGACATGCTGACCAAAAACGGTCGCCTGCTGa < 2:179422/139‑1 (MQ=255)
gCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCa < 1:78468/77‑1 (MQ=255)
gCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCa > 2:78468/1‑77 (MQ=255)
gACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAGCCAACATGGACATGCTGACCAAAAACGGTCGCCTGCTGAATGAGATAACCAAAGt > 1:477469/1‑139 (MQ=255)
cggcggAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAGc > 1:246799/1‑81 (MQ=255)
cggcggAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAGc < 2:246799/81‑1 (MQ=255)
cggcggAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAGCCAACATGGACATGCTGACCAAAAACGGt > 2:256755/1‑109 (MQ=255)
cggcggAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAGCCAACATGGACATGCTGACCAAAAACGGt < 1:256755/109‑1 (MQ=255)
gATAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAGCCAACATGGACATGCTGACCAAAAACGGTCGCCTGCTGAATGAGATAACCAAAGTTTTCCAGCGTGCGTTGa > 2:537169/1‑139 (MQ=255)
gATAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAGCCAACATGGACATGCTGACCAAAAACGGTCGCCTGCTGAATGAGATAACCAAAGTTTTCCAGCGTGCGTTGa < 2:570931/139‑1 (MQ=255)
tAAAGTGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAGCCAACATGGACATGCTGACCAAAAACGGTCGCCTGCTGAATGAGATAACCAAAGTTTTCCAGCGTGCGTTGATa < 1:537169/139‑1 (MQ=255)
tGCGGCACAAATCGTGACAAGCTGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAGCCAACATGGACATGCTGACCAAAAACGGTCGCCTGCTGAATGAGATAACCAAAGTTTTCCAGCGTGCGTTGATAGcgtt < 2:477469/139‑1 (MQ=255)
|
CGGCATCGGGCCATTATCAGGAAAGGCGGAAAAAATATTCGGTCGTGAGGAGGCAAAACGCGTATCCGTTCCCTGCATATATGGCGACGCGGCGGAAAGGGCGATAAAGTGCGGCACAAATCGTGACAAGCCGTGCAGCAAATAAATGGCGTCATCGCCACTGGCGCAGCCAACATGGACATGCTGACCAAAAACGGTCGCCTGCTGAATGAGATAACCAAAGTTTTCCAGCGTGCGTTGATAGCGTT > NC_000913/606796‑607043
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
