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 |
|
A14 F1 I1 R1
|
770 |
68.5 |
3470224 |
91.7% |
3182195 |
103.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,599,234 |
C→T |
G70S (GGT→AGT) |
opgB ← |
OPG periplasmic biosynthetic phosphoglycerol transferases I (membrane‑bound) and II (soluble) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,599,234 | 0 | C | T | 96.2%
| 154.9
/ ‑1.6
| 52 | G70S (GGT→AGT) | opgB | OPG periplasmic biosynthetic phosphoglycerol transferases I (membrane‑bound) and II (soluble) |
| Reads supporting (aligned to +/- strand): ref base C (1/1); new base T (23/27); total (24/28) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.43e-01 |
AGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCCCCAGCACCGTTAACGTGGCTGCAAACC > NC_000913/4599104‑4599362
|
agcagGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGc > 2:1082628/1‑139 (MQ=255)
tGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGt < 2:1083352/139‑1 (MQ=255)
gTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGtt < 2:915568/139‑1 (MQ=255)
tAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACACCAGCACTGGTCAGGCTGTTGGtt > 1:705812/1‑138 (MQ=255)
tAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACACCAGCACTGGTCAGGCTGTTGGtt < 2:705812/138‑1 (MQ=255)
aCCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAg < 2:897152/139‑1 (MQ=255)
aaTGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGt > 1:109036/1‑118 (MQ=255)
aaTGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGt < 2:109036/118‑1 (MQ=255)
aaTGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGtata < 1:1537813/139‑1 (MQ=255)
tGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGaa > 1:1092930/1‑139 (MQ=255)
gCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAAc > 1:727094/1‑139 (MQ=255)
cGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAAcc < 2:727094/139‑1 (MQ=255)
gatgatGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACcgc < 1:1082628/139‑1 (MQ=255)
atgatgGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTa > 2:1333979/1‑122 (MQ=255)
atgatgGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTa < 1:1333979/122‑1 (MQ=255)
atgatgGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACcgcg < 2:1293245/139‑1 (MQ=255)
tgGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAg < 2:452835/120‑1 (MQ=255)
tgGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAg > 1:452835/1‑120 (MQ=255)
acgacgGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATa < 2:1579782/139‑1 (MQ=255)
cgGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCAt > 2:919064/1‑139 (MQ=255)
cccagcGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTa > 1:1558280/1‑94 (MQ=255)
cccagcGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTa < 2:1558280/94‑1 (MQ=255)
cgcACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTg > 1:296421/1‑139 (MQ=255)
cGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCaaa < 2:1079140/139‑1 (MQ=255)
acCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAggg > 1:258500/1‑139 (MQ=255)
gCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGa > 1:1006633/1‑139 (MQ=255)
aGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTa < 2:344533/139‑1 (MQ=255)
aGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTg < 2:1610232/126‑1 (MQ=255)
aGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTg > 1:1610232/1‑126 (MQ=255)
tGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGt > 1:76406/1‑55 (MQ=255)
tGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGt < 2:76406/55‑1 (MQ=255)
tGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAATGTATAGAGAACcgcg < 2:1157430/74‑1 (MQ=255)
tGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCaaa > 1:622735/1‑112 (MQ=255)
tGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCaaa < 2:622735/112‑1 (MQ=255)
tGCCGATACCCGGCAAAATATATTTGCTGGCGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACcgcg > 1:1157430/1‑74 (MQ=255)
cGATACCCGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGccc < 2:1092930/139‑1 (MQ=255)
aTACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACa > 2:1521576/1‑109 (MQ=255)
aTACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACa < 1:1521576/109‑1 (MQ=255)
cGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAg > 2:303425/1‑49 (MQ=255)
cGGCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAg < 1:303425/49‑1 (MQ=255)
gCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACcgcg > 2:1537612/1‑62 (MQ=255)
gCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACcgcg < 1:1537612/62‑1 (MQ=255)
gCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACcgc > 1:258205/1‑61 (MQ=255)
gCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACcgc < 2:258205/61‑1 (MQ=255)
gCAAAATGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCCCCAGCACCGt > 2:1621862/1‑139 (MQ=255)
tGTATTTGCTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCCCCAGCACCGTTAACGt < 2:258500/139‑1 (MQ=255)
cTGACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCCCCAGCACCGTTAACGTGGCTGCaa > 2:66406/1‑139 (MQ=255)
gACGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAGAATAGTCGCTGGCaaa < 1:1168278/84‑1 (MQ=255)
gACGCCAGCACTCATCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCaaa > 2:1168278/1‑84 (MQ=255)
aCGCCAGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCCCCAGCACCGTTAACGTGGCTGCAAacc < 2:296421/139‑1 (MQ=255)
aGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTa < 1:1282441/92‑1 (MQ=255)
aGCACTGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTa > 2:1282441/1‑92 (MQ=255)
|
AGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCCCCAGCACCGTTAACGTGGCTGCAAACC > NC_000913/4599104‑4599362
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
