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 |
|
A78 F1 I1 R1
|
16 |
49.7 |
3184232 |
95.8% |
3050494 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,570,909 |
T→A |
I37N (ATC→AAC) |
uspA → |
universal stress global response regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,570,909 | 0 | T | A | 97.5%
| 152.5
/ ‑2.5
| 40 | I37N (ATC→AAC) | uspA | universal stress global response regulator |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base A (8/31); total (8/32) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.40e-01 |
CCCCGGAAAGCAAAGTTCTGGTAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTGGGTGATATGCAGAAACG > REL606/3570837‑3570981
|
ccccGGAAAGCAAAGTTCTGGTAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGATCCa < 2:1545532/76‑1 (MQ=255)
cccGGAAAGCAAAGTTCTGGTAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCAc < 2:1146831/76‑1 (MQ=255)
ccGGAAAGCAAAGTTCTGGTAGAGAAAGCAGTCTCTATGGCTCGCCCCTACCATGCGAAAGTTTCTCTGAACCACg > 1:79085/1‑76 (MQ=255)
aaaGCAAAGTTCTGGTAGAGAAAGCAGTCTCTATGGCTCGGCCGTACAATGAGGAAGCTTCTCTGTGCCACGTAgc > 2:220663/1‑75 (MQ=255)
aaGCAAAGTTCTGGTAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGAt < 2:1240206/76‑1 (MQ=255)
aaGCAAAGTTCTGGTAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGAt < 2:396878/76‑1 (MQ=255)
aaGCAAAGTTCTGGTAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGAt < 1:621060/76‑1 (MQ=255)
cAAAGTTCTGGGGGAAACAGCCGTTACTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTa < 2:669648/76‑1 (MQ=255)
aaaGTTCTGGTAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTaa > 1:1585246/1‑76 (MQ=255)
aaGTTCTGGTAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTaaa < 1:1270551/76‑1 (MQ=255)
aaGTTCTGGTAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTaaa > 2:1504109/1‑76 (MQ=255)
aaGTTCTGGTAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTaaa < 2:693171/76‑1 (MQ=255)
aGTTCTGGTAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAac < 2:186141/76‑1 (MQ=255)
aGTTCTGGTAGAGAAAGCAGTCTCTATGGCTCGCCCCCACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAac > 2:1006/1‑76 (MQ=255)
ttCTGGTAGAGAAAGCAGTCTCTATGGCTCTCCCCTTCAACAAGTACGCTTTTCTGAACCACGAAGGTGTTAacta > 2:475985/1‑76 (MQ=255)
cTGGTAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAAAGCGAAAATTTCTCTTAACCACGTAGATGTAAaataat > 1:784873/1‑74 (MQ=255)
gTAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTg < 1:1392527/76‑1 (MQ=255)
tAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGa < 2:951211/76‑1 (MQ=255)
tAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGa > 2:801784/1‑76 (MQ=255)
tAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGa < 1:740929/76‑1 (MQ=255)
tAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGa < 1:217903/76‑1 (MQ=255)
aaaGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCtat < 2:683206/76‑1 (MQ=255)
aaaGCAGTCTCTATGGCTCGCCCCAACAATGCGAAAGTTTCTCTCACCAAAGGAGATGGAAACTACTCTGCCCtat > 2:191227/1‑76 (MQ=255)
aaGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCtata > 1:658856/1‑76 (MQ=255)
gCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATacn < 1:1386087/76‑2 (MQ=255)
gCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATaca < 1:208312/76‑1 (MQ=255)
gTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCg < 2:141817/76‑1 (MQ=255)
tctcTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCgg < 1:109557/76‑1 (MQ=255)
ctATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCt < 1:566567/76‑1 (MQ=255)
tATGGCTCCCCCCCACAATGCGAAAGTTTTTCTGAACCACGTAGATGTAAAATACTCTGACCTATACACCGGGcct > 2:684937/1‑74 (MQ=255)
ggCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTAtt < 2:1426893/76‑1 (MQ=255)
gCTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTg < 1:1568505/76‑1 (MQ=255)
cTCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGa > 1:609896/1‑76 (MQ=255)
tCGCCCCTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGAt < 1:1075774/76‑1 (MQ=255)
gcccTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGAtgtg < 2:1023618/75‑1 (MQ=255)
cccTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGa > 1:149493/1‑76 (MQ=255)
cTACAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAAt < 1:1263398/76‑1 (MQ=255)
aCAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCt < 2:590733/76‑1 (MQ=255)
cAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTg > 1:334421/1‑76 (MQ=255)
cAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTg > 1:725949/1‑76 (MQ=255)
cAATGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTg < 2:1404214/76‑1 (MQ=255)
aaTGCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTgg < 1:999046/76‑1 (MQ=255)
gCGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTGGGTg < 2:663533/76‑1 (MQ=255)
gCGAAAGTTTCTCGGAAATACGTAGATGTAAACTACTCTGACCTATTCACCGGGCTTATTGATGTGAATCAGGTTg < 2:830983/76‑1 (MQ=255)
cGAAAGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTGGGTGa > 1:556038/1‑76 (MQ=255)
aaGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTGGGTGatat > 1:1340834/1‑76 (MQ=255)
aaGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTGGGTGatat > 2:794959/1‑76 (MQ=255)
aGTTTCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTGGGTGATATg < 1:1148662/76‑1 (MQ=255)
ttCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTGGGTGATATGCAg < 2:875753/76‑1 (MQ=255)
ttCTCTGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTGGGTGATATGCAg < 2:875776/76‑1 (MQ=255)
ctGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTGGGTGATATGCAGAAAc < 2:1450409/76‑1 (MQ=255)
tGAACCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTGGGTGATATGCAGAAACg > 2:1133194/1‑76 (MQ=255)
|
CCCCGGAAAGCAAAGTTCTGGTAGAGAAAGCAGTCTCTATGGCTCGCCCCTACAATGCGAAAGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTGGGTGATATGCAGAAACG > REL606/3570837‑3570981
|
| 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
