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 |
|
A73 F1 I1 R1
|
21 |
62.0 |
3993596 |
96.1% |
3837845 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,928,260 |
T→A |
I15N (ATC→AAC) |
rho → |
transcription termination factor Rho |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,928,260 | 0 | T | A | 94.5%
| 206.4
/ 5.2
| 55 | I15N (ATC→AAC) | rho | transcription termination factor Rho |
| Reads supporting (aligned to +/- strand): ref base T (1/2); new base A (27/25); total (28/27) |
| Fisher's exact test for biased strand distribution p-value = 6.11e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.65e-02 |
TTTACCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGATCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCATCCT > REL606/3928187‑3928332
|
tttACCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACa < 2:1501134/76‑1 (MQ=255)
ttACCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAacac > 1:3503/1‑76 (MQ=255)
aCCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACActc > 1:1443817/1‑76 (MQ=255)
ccccAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACActct < 2:1310859/76‑1 (MQ=255)
ccccAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACActct < 2:685654/76‑1 (MQ=255)
cccAAGTTTAAGAACTCGCACCACTATGAATCTTGCCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACtctc < 1:1731333/76‑1 (MQ=255)
ccAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCg > 2:466815/1‑76 (MQ=255)
ccAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCg < 2:473285/76‑1 (MQ=255)
cAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCgg < 1:438056/76‑1 (MQ=255)
aGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCg > 1:1770794/1‑76 (MQ=255)
tttAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGaa < 2:1772321/76‑1 (MQ=255)
tttAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGaa > 1:1549524/1‑76 (MQ=255)
ttAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGaaa > 1:60219/1‑76 (MQ=255)
tAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGaaaa > 2:1874697/1‑76 (MQ=255)
gAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAatat < 2:723258/76‑1 (MQ=255)
aaCTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATg > 1:809123/1‑76 (MQ=255)
aaCTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATg < 1:630870/76‑1 (MQ=255)
cTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCG‑AAATATgggg < 2:872592/76‑1 (MQ=255)
tCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATgggg > 2:1955134/1‑76 (MQ=255)
acacCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCt < 2:1807902/76‑1 (MQ=255)
caccacTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTg < 1:375946/76‑1 (MQ=255)
accacTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTgg < 2:1344098/76‑1 (MQ=255)
cacTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGaa < 1:205372/76‑1 (MQ=255)
cacTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGaa < 1:77245/76‑1 (MQ=255)
acTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGaaa < 1:1933328/76‑1 (MQ=255)
cTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGaaaa > 2:1306411/1‑76 (MQ=255)
tATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAAc < 2:1193492/76‑1 (MQ=255)
aTGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAAcc > 2:1368485/1‑76 (MQ=255)
aTGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAAcc > 1:16274/1‑76 (MQ=255)
aTGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAAcc > 2:83070/1‑76 (MQ=255)
aTCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGc > 1:681383/1‑76 (MQ=255)
cTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTc < 2:1907849/76‑1 (MQ=255)
cTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTc > 1:486740/1‑76 (MQ=255)
ttACCGAATTAAAGAATACGCCGGTTTCTGAGCTGATCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCg < 2:1487282/76‑1 (MQ=255)
ttACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCg > 2:1987332/1‑76 (MQ=255)
tACCGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGt < 1:1488833/76‑1 (MQ=255)
ccGAATTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTAt < 2:45024/76‑1 (MQ=255)
aaTTAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCg > 1:328154/1‑76 (MQ=255)
ttAAAGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTa > 1:973874/1‑76 (MQ=255)
tAAAGAATACGCCGGTTTCTGAGCTGAACACTCCCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTaa < 1:456057/76‑1 (MQ=255)
aaaGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAg > 2:1665566/1‑76 (MQ=255)
aaaGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAg > 2:1944470/1‑76 (MQ=255)
aaGAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGc < 1:261027/76‑1 (MQ=255)
gAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAg > 1:991884/1‑76 (MQ=255)
gAATACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAg < 1:328693/76‑1 (MQ=255)
aaTACGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAgg < 1:304032/76‑1 (MQ=255)
cGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTGGTATGCGTAAGCAGGACat < 1:1245537/76‑1 (MQ=255)
cGCCGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACat < 1:1951183/76‑1 (MQ=255)
ccGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACatta < 2:812945/76‑1 (MQ=255)
cGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTCAGCAGGCCattat > 2:719595/1‑76 (MQ=255)
cGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACattat > 2:372847/1‑76 (MQ=255)
cGGTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACattat > 2:719592/1‑76 (MQ=255)
ngTTTCTGAGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACattatt > 1:345390/2‑76 (MQ=255)
gTTTCTGAGCTGATCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTAttt < 1:1222418/76‑1 (MQ=255)
gAGCTGATCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCa > 1:558913/1‑76 (MQ=255)
aGCTGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCAt > 1:7230/1‑76 (MQ=255)
tGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCATCCt > 1:970654/1‑76 (MQ=255)
tGAACACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCATCCt > 2:1125389/1‑76 (MQ=255)
|
TTTACCCCAAGTTTAAGAACTCACACCACTATGAATCTTACCGAATTAAAGAATACGCCGGTTTCTGAGCTGATCACTCTCGGCGAAAATATGGGGCTGGAAAACCTGGCTCGTATGCGTAAGCAGGACATTATTTTTGCCATCCT > REL606/3928187‑3928332
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
