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 |
1,091,823 |
C→A |
38.2% |
P85P (CCG→CCT) |
sufA ← |
Fe‑S cluster assembly protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,091,823 | 0 | C | A | 38.2%
| 36.4
/ 35.3
| 47 | P85P (CCG→CCT) | sufA | Fe‑S cluster assembly protein |
| Reads supporting (aligned to +/- strand): ref base C (14/15); new base A (3/15); total (17/30) |
| Fisher's exact test for biased strand distribution p-value = 3.43e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGTTGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGCATCGCTTGCAGCGGGACAAACAGCTTCGCGCCGTCGTGTTCAAACAGCAGATCGTCTTTG > minE/1091756‑1091886
|
ggTTGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAAc < 1:2201419/68‑1 (MQ=255)
ggTTGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAAc < 1:3384277/68‑1 (MQ=255)
ggTTGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAAc < 1:3356558/68‑1 (MQ=255)
ggTTGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAAc < 1:3320195/68‑1 (MQ=255)
ggTTGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAAc < 1:300005/68‑1 (MQ=255)
ggTTGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAAc < 1:2799609/68‑1 (MQ=255)
gTTGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAAc < 1:1554615/67‑1 (MQ=255)
ttGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGc < 1:2988388/69‑1 (MQ=255)
ttGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGc < 1:2254775/69‑1 (MQ=255)
ttGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGc < 1:2349277/69‑1 (MQ=255)
ttGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGc < 1:2379195/69‑1 (MQ=255)
ttGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGc < 1:2778886/69‑1 (MQ=255)
ttGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGc < 1:1941636/69‑1 (MQ=255)
ttGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGc < 1:2897300/69‑1 (MQ=255)
ttGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGc < 1:1484412/69‑1 (MQ=255)
gtgAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGCAt > 1:2796387/1‑69 (MQ=255)
gtgAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGCAt > 1:2656702/1‑69 (MQ=255)
gtgAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGCAt > 1:629240/1‑69 (MQ=255)
gtgAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGCAt > 1:852575/1‑69 (MQ=255)
gtgAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGCAt > 1:940686/1‑69 (MQ=255)
gAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGCATCg > 1:377584/1‑69 (MQ=255)
tCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGCATCGCTTGCAGCggg > 1:682174/1‑68 (MQ=255)
tAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGCATCGCTTGCAGCGGGACAAAc > 1:538617/1‑68 (MQ=255)
cTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGCATCGCTTGCAGCGGGACAAACAGCTTcg > 1:634565/1‑69 (MQ=255)
cTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGCATCGCTTGCAGCGGGACAAACAGCTTcg > 1:1525523/1‑69 (MQ=255)
cTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGCATCGCTTGCAGCGGGACAAACAGCTTc > 1:2107098/1‑68 (MQ=255)
tcgcgaacgaaATCGACTTCCGTGCCATCAATAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTcgcg < 1:3239881/66‑1 (MQ=255)
tcgcgaacgaaATCGACTTCCGTGCCATCAATAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTcgcg < 1:1094274/66‑1 (MQ=255)
tcgcgaacgaaATCGACTTCCGTGCCATCAATAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTcgcg < 1:786062/66‑1 (MQ=255)
tcgcgaacgaaATCGACTTCCGTGCCATCAATAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTcgcg < 1:760754/66‑1 (MQ=255)
tcgcgaacgaaATCGACTTCCGTGCCATCAATAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTcgcg < 1:1191591/66‑1 (MQ=255)
tcgcgaacgaaATCGACTTCCGTGCCATCAATAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTcgcg < 1:3393885/66‑1 (MQ=255)
tcgcgaacgaaATCGACTTCCGTGCCATCAATAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTcgcg < 1:3351432/66‑1 (MQ=255)
tcgcgaacgaaATCGACTTCCGTGCCATCAATAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTcgcg < 1:2174457/66‑1 (MQ=255)
tcgcgaacgaaATCGACTTCCGTGCCATCAATAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTcgcg < 1:3041736/66‑1 (MQ=255)
tcgcgaacgaaATCGACTTCCGTGCCATCAATAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTcgcg < 1:19102/66‑1 (MQ=255)
tcgcgaacgaaATCGACTTCCGTGCCATCAATAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTcgcg < 1:1549622/66‑1 (MQ=255)
tcgcgaacgaaATCGACTTCCGTGCCATCAATAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTcgcg < 1:2737329/66‑1 (MQ=255)
tcgcgaacgaaATCGACTTCCGTGCCATCAATAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTcgcg < 1:2632102/66‑1 (MQ=255)
tcgcgaacgaaATCGACTTCCGTGCCATCAATAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTcgcg < 1:2126262/66‑1 (MQ=255)
cgaaATCGACTTCCGTGCCATCAATAAACGGCATCGCTTGCAGCGGGACAAACAGCTTCGCGCcgtcgt < 1:1778219/69‑1 (MQ=255)
tCGACTTCCGTGCCATCAATAAACGGCATCGCTTGCAGCGGGACAAACAGCTTCGCGCCGTCGTGTTCa < 1:1987038/69‑1 (MQ=255)
tCGACTTCCGTGCCATCAATAAACGGCATCGCTTGCAGCGGGACAAACAGCTTCGCGCCGTCGTGTTCa < 1:1173458/69‑1 (MQ=255)
cTTCCGTGCCATCAATAAACGGCATCGCTTGCAGCGGGACAAACAGCTTCGCGCCGTCGTGTTCAAAca < 1:2878389/69‑1 (MQ=255)
cTTCCGTGCCATCAATAAACGGCATCGCTTGCAGCGGGACAAACAGCTTCGCGCCGTCGTGTTCAAAca < 1:2652110/69‑1 (MQ=255)
gCCATCAATAAACGGCATCGCTTGCAGCGGGACAAACAGCTTCGCGCCGTCGTGTTCAAACAGCAGATc < 1:1597249/69‑1 (MQ=255)
cATCAATAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTcgcg < 1:3386500/44‑1 (MQ=255)
aaTAAACGGCATCGCTTGCAGCGGGACAAACAGCTTCGCGCCGTCGTGTTCAAACAGCAGATCGTCttt > 1:142557/1‑69 (MQ=255)
aaTAAACGGCATCGCTTGCAGCGGGACAAACAGCTTCGCGCCGTCGTGTTCAAACAGCAGATCGTCttt > 1:515879/1‑69 (MQ=255)
aaTAAACGGCATCGCTTGCAGCGGGACAAACAGCTTCGCGCCGTCGTGTTCAAACAGCAGATCGTCttt > 1:2320048/1‑69 (MQ=255)
aTAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTCGCGCCTTCGTGTTCAAACAGCAGATCGTCTTTg > 1:2316535/1‑69 (MQ=255)
aTAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTCGCGCCTTCGTGTTCAAACAGCAGATCGTCTTTg > 1:2024479/1‑69 (MQ=255)
aTAAAAGGCATCGCTTGCAGCGGGACAAACAGCTTCGCGCCTTCGTGTTCAAACAGCAGATCGTCTTTg > 1:1308429/1‑69 (MQ=255)
aaCGGCATCGCTTGCAGCGGGACAAACAGCTTCGCGCCGTCGTGTTCAAACAGCAGATc < 1:1008788/59‑1 (MQ=255)
|
GGTTGTGAAATTTGAATATCTGATTAAGTCCTTCACGAACGAAATCGACTTCCGTGCCATCAATAAACGGCATCGCTTGCAGCGGGACAAACAGCTTCGCGCCGTCGTGTTCAAACAGCAGATCGTCTTTG > minE/1091756‑1091886
|
| 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
