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 |
|
A89 F1 I1 R1
|
15 |
55.0 |
3646496 |
95.5% |
3482403 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,202,462 |
A→G |
L33S (TTA→TCA) |
iclR ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,202,462 | 0 | A | G | 94.4%
| 128.1
/ ‑1.0
| 36 | L33S (TTA→TCA) | iclR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base A (0/2); new base G (15/19); total (15/21) |
| Fisher's exact test for biased strand distribution p-value = 5.00e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.11e-01 |
TGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTTTCTGCCGC > REL606/4202391‑4202534
|
tGGGTAACCCGGCTTGTTGCGCCAGTGCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCTCTCCAGTAAttt < 2:918089/76‑1 (MQ=255)
gggTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTGATTTc < 2:919877/76‑1 (MQ=255)
gggTAACCCGGCTTGTTGCGCCAGTTCCGTGAGCGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTGATTTc > 1:1366244/1‑76 (MQ=255)
gcgTAACCCGGCTTGTTGCGCCAGTTCCGTGACTGCCACACTGCCATTGGATTCGCCAATCCACTCCAGTGATTTc < 2:1601407/74‑1 (MQ=255)
ggTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCa < 2:1191951/76‑1 (MQ=255)
gTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCAg > 1:1040790/1‑76 (MQ=255)
aCCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCAGGcc > 1:1109984/1‑76 (MQ=255)
cTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGt > 1:849131/1‑76 (MQ=255)
tgttgCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTa > 1:1104325/1‑76 (MQ=255)
gttgCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTaa < 1:579930/76‑1 (MQ=255)
tgCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAg < 1:1468223/76‑1 (MQ=255)
gcgcCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGa < 1:1146750/76‑1 (MQ=255)
aGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGaa < 1:15221/76‑1 (MQ=255)
tCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTAATTTCAGGCCACGCGTTAAAGACTGAACCt < 1:1035176/76‑1 (MQ=255)
ccGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTg < 2:1189962/76‑1 (MQ=255)
gTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTc < 1:1019949/76‑1 (MQ=255)
gAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCa < 1:385234/76‑1 (MQ=255)
tGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTc > 2:1714486/1‑76 (MQ=255)
acacTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTg < 2:571231/76‑1 (MQ=255)
acTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGt > 1:171130/1‑76 (MQ=255)
acTGCCATTGGATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGCCGCTGGt > 1:846950/1‑76 (MQ=255)
gCCATTGGATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCg > 1:204816/1‑76 (MQ=255)
ccATTGGATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCgg > 1:1277156/1‑76 (MQ=255)
ggATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCa < 2:1768356/76‑1 (MQ=255)
gATTCGGCAATCCTCTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCaa < 2:1707548/76‑1 (MQ=255)
gATTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCaa < 1:449414/76‑1 (MQ=255)
aTTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAAc > 2:406968/1‑76 (MQ=255)
aTTCGGCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGCGGCaag > 2:250515/1‑75 (MQ=255)
ggCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAAcggcg < 1:304478/76‑1 (MQ=255)
ggCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAAcggcg < 2:550460/76‑1 (MQ=255)
gCAATCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAAcggcgg > 2:1664634/1‑76 (MQ=255)
aTCCACTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCggggt > 1:384454/1‑74 (MQ=255)
cTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTTTCTg < 2:986012/76‑1 (MQ=255)
cTCCAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTTTCTg < 2:659036/76‑1 (MQ=255)
ccAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGGTTTTTGcc > 2:66096/1‑76 (MQ=255)
ccAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGGTTTCTGcc > 1:219127/1‑76 (MQ=255)
cAGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTTTCTGCcg < 1:445249/76‑1 (MQ=255)
aGTGATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTTTCTGCcgc < 2:708596/76‑1 (MQ=255)
|
TGGGTAACCCGGCTTGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTTTCTGCCGC > REL606/4202391‑4202534
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
