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 |
|
A18 F1 I1 R1
|
18 |
50.6 |
3235256 |
96.4% |
3118786 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,251,818 |
C→T |
A315T (GCG→ACG) |
nusA ← |
transcription elongation factor NusA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,251,818 | 0 | C | T | 94.3%
| 119.8
/ ‑3.4
| 35 | A315T (GCG→ACG) | nusA | transcription elongation factor NusA |
| Reads supporting (aligned to +/- strand): ref base C (0/2); new base T (16/17); total (16/19) |
| Fisher's exact test for biased strand distribution p-value = 4.89e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.58e-01 |
ATCACGTTGAGTTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATCCACCACGATAGAAGCAACGTCTG > REL606/3251745‑3251889
|
atcaCGTTGAGTTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGTCa < 1:217571/76‑1 (MQ=255)
tcaCGTTGAGTTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGTCAg > 2:1614583/1‑76 (MQ=255)
caCGTTGAGTTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGTCAgg < 1:671804/76‑1 (MQ=255)
cGTTGAGTTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGtt < 1:783242/76‑1 (MQ=255)
ttGAGTTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTAc < 1:1579518/76‑1 (MQ=255)
tGAGTTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTAcc > 1:595433/1‑76 (MQ=255)
cAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCaa > 2:769625/1‑76 (MQ=255)
cAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCaa < 1:881901/76‑1 (MQ=255)
aCCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACg > 1:784929/1‑76 (MQ=255)
ccGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACgg < 2:371440/76‑1 (MQ=255)
cGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGc > 2:494632/1‑76 (MQ=255)
cAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGata < 1:922756/76‑1 (MQ=255)
cTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATcc > 2:901408/1‑76 (MQ=255)
cGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATg > 1:942610/1‑76 (MQ=255)
aaGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGgt > 2:993617/1‑76 (MQ=255)
aGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGgtg > 1:824233/1‑76 (MQ=255)
cACGTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCt > 2:698451/1‑76 (MQ=255)
aCGTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCtt < 1:1142195/76‑1 (MQ=255)
aCGTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCtt > 1:1559153/1‑76 (MQ=255)
gTTCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCa < 2:158747/76‑1 (MQ=255)
ttCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGGGTGTTTATCTTGAt > 2:419486/1‑76 (MQ=255)
tCTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATc > 1:1299451/1‑76 (MQ=255)
cTGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATcc > 1:1291076/1‑76 (MQ=255)
tGACCGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATcca < 2:924675/76‑1 (MQ=255)
ccGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATccacca < 1:1157100/76‑1 (MQ=255)
cGTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATNTTCATCcaccac < 1:20781/76‑1 (MQ=255)
gTTACGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATCCACCACg < 1:1113789/76‑1 (MQ=255)
cGGCCAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATCCACCACGATAg < 1:333231/76‑1 (MQ=255)
ccAATCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATCCACCACGATAGAAg > 1:379655/1‑76 (MQ=255)
aaTCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATCCACCACGATAGAAGCa > 1:831382/1‑76 (MQ=255)
aTCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATCCACCACGATAGAAGCaa < 1:695357/76‑1 (MQ=255)
aTCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATCCACCACGATAGAAGCaa < 1:442565/76‑1 (MQ=255)
tCGCCTGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATCCACCACGATAGAAGCAAc < 1:350869/76‑1 (MQ=255)
cTGCGCCAGGTTACCGGTTTCAACGGCGATATCCGTGGTGTGTTTATCTCCATCCACCACGATAGAAGCAACGTCt < 1:177993/76‑1 (MQ=255)
tGCGTCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATTCACCACGATAGAAGCAACGTCTg < 2:1491437/76‑1 (MQ=255)
|
ATCACGTTGAGTTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATCCACCACGATAGAAGCAACGTCTG > REL606/3251745‑3251889
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
