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 |
|
A94 F1 I1 R1
|
15 |
48.6 |
3202402 |
95.4% |
3055091 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,161,106 |
A→G |
E84G (GAA→GGA) |
rpoB → |
DNA‑directed RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,161,106 | 0 | A | G | 94.5%
| 200.7
/ 0.1
| 55 | E84G (GAA→GGA) | rpoB | DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base A (1/2); new base G (29/23); total (30/25) |
| Fisher's exact test for biased strand distribution p-value = 5.85e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
GCTACAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGAGCGCG > REL606/4161037‑4161177
|
gCTACAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCa < 1:379887/76‑1 (MQ=255)
aCAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAAt < 2:1353664/76‑1 (MQ=255)
ggTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTg > 2:1257684/1‑76 (MQ=255)
ggTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGGCAAATCCggg > 1:302385/1‑74 (MQ=255)
aaTTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCg > 1:960977/1‑76 (MQ=255)
aaTTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCg > 1:2523/1‑76 (MQ=255)
aTTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTGCAGGGATGTCAAATCCGTGGCGt > 2:808053/1‑76 (MQ=255)
ccGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGAc > 1:675480/1‑76 (MQ=255)
aGCTGCAATACGTCAGCTTCCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTa < 2:1332394/76‑1 (MQ=255)
cTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTAtt > 1:237089/1‑76 (MQ=255)
tGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTc > 2:199146/1‑76 (MQ=255)
tGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTc > 2:553050/1‑76 (MQ=255)
aTACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTTCGCa > 2:952124/1‑76 (MQ=255)
tACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCAc < 2:1563589/76‑1 (MQ=255)
tACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCAc > 2:329197/1‑76 (MQ=255)
tACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCAc > 2:460004/1‑76 (MQ=255)
tACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCAc > 2:988939/1‑76 (MQ=255)
tACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCAc > 1:478432/1‑76 (MQ=255)
tACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGNGACCTATTCCGCAc < 1:868279/76‑1 (MQ=255)
cGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCTAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCg < 1:199110/76‑1 (MQ=255)
cGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCg > 1:930238/1‑76 (MQ=255)
gTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGc > 1:128687/1‑76 (MQ=255)
cAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTg > 1:1586436/1‑76 (MQ=255)
cAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTg < 1:524542/76‑1 (MQ=255)
gCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGGGACCTTTTCCGCACCGCTgcg > 2:271903/1‑76 (MQ=255)
cTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTgcgc < 2:615982/76‑1 (MQ=255)
tACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCTAATCCGTGGCGTGACCTATTCCGCACCGCTGcgcg < 2:1448635/76‑1 (MQ=255)
cGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTa < 2:1411745/76‑1 (MQ=255)
cGCCTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTa < 2:685225/76‑1 (MQ=255)
gCCTTGGCGAACCGGTGTTTGACGTCCAGTGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTaa < 2:466218/76‑1 (MQ=255)
ccTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTaaa < 1:240071/76‑1 (MQ=255)
ccTTGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTaaa < 2:52298/76‑1 (MQ=255)
tGGCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTg < 1:461195/76‑1 (MQ=255)
ggCGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGc > 1:1328243/1‑76 (MQ=255)
cGAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGt < 1:69352/76‑1 (MQ=255)
gAACCGGTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTc < 2:1504397/76‑1 (MQ=255)
cGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGt > 1:1551580/1‑76 (MQ=255)
ggTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTg < 2:65956/76‑1 (MQ=255)
ggTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTg > 1:508811/1‑76 (MQ=255)
ggTGTTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTg < 1:574235/76‑1 (MQ=255)
tgtTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGAt > 1:1105137/1‑76 (MQ=255)
gtTTGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATc < 2:70361/76‑1 (MQ=255)
tttGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCt > 1:131148/1‑76 (MQ=255)
tttGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCt < 2:960977/76‑1 (MQ=255)
ttGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTa > 2:627835/1‑76 (MQ=255)
ttGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTa > 1:124594/1‑76 (MQ=255)
tGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTAt > 2:42270/1‑76 (MQ=255)
tGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTAt > 2:914623/1‑76 (MQ=255)
tGACGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGGGATCTAt > 2:625410/1‑76 (MQ=255)
aCGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGTGTTAAACTGCGTCTGGTGATCTATGa < 2:783023/76‑1 (MQ=255)
aCGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGa < 2:704044/76‑1 (MQ=255)
cGTCCAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGAg < 2:1076197/76‑1 (MQ=255)
ccAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGAgcgc > 2:542433/1‑76 (MQ=255)
ccAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGAgcgc > 1:912549/1‑76 (MQ=255)
cAGGGATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGAGcgcg < 1:1196666/76‑1 (MQ=255)
|
GCTACAGCGGTAATTCCGAGCTGCAATACGTCAGCTACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGAGCGCG > REL606/4161037‑4161177
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
