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 |
|
A53 F1 I1 R1
|
17 |
63.8 |
4051746 |
97.3% |
3942348 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,166,065 |
C→T |
P369S (CCG→TCG) |
rpoC → |
DNA‑directed RNA polymerase subunit beta' |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,166,065 | 0 | C | T | 98.4%
| 243.4
/ ‑4.6
| 64 | P369S (CCG→TCG) | rpoC | DNA‑directed RNA polymerase subunit beta' |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (36/27); total (37/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01 |
AGCGTGTTGACTACTCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTACCA > REL606/4165994‑4166137
|
aGCGTGTTGACTACTCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCgaa < 2:639047/76‑1 (MQ=255)
gCGTGTTGACTACTCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCgaag < 1:1488874/76‑1 (MQ=255)
gCGTGTTGACTACTCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCgaag < 2:1609827/76‑1 (MQ=255)
gtgtTGACTACTCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCgaagaa < 1:1217960/76‑1 (MQ=255)
tgtTGACTACTCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGaaa < 1:1372852/76‑1 (MQ=255)
tgtTGACTACTCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGaaa > 2:125423/1‑76 (MQ=255)
gtTGACTACTCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGaaaa > 1:508733/1‑76 (MQ=255)
ctactCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCa > 1:1799887/1‑76 (MQ=255)
tactCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCAc > 2:1306944/1‑76 (MQ=255)
ctCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTg > 2:1122826/1‑76 (MQ=255)
ctCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTg > 1:572050/1‑76 (MQ=255)
tCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTgg < 1:1959979/76‑1 (MQ=255)
tCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTgg > 1:174763/1‑76 (MQ=255)
cGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGt > 2:750788/1‑76 (MQ=255)
cGNTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGt > 2:1422753/1‑76 (MQ=255)
gTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGtt > 1:611435/1‑76 (MQ=255)
gTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGtt > 2:135987/1‑76 (MQ=255)
ttCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTc > 1:598870/1‑76 (MQ=255)
ttCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTc > 2:335321/1‑76 (MQ=255)
tCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCa > 1:1833462/1‑76 (MQ=255)
tCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCa > 1:39327/1‑76 (MQ=255)
tGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCaaa > 1:243273/1‑76 (MQ=255)
gTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAAc > 1:805506/1‑76 (MQ=255)
cGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATc < 1:86900/76‑1 (MQ=255)
gTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCt < 2:294937/76‑1 (MQ=255)
aGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTAc < 2:1304305/76‑1 (MQ=255)
aGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTAc < 1:450061/76‑1 (MQ=255)
aGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTAc < 1:1576932/76‑1 (MQ=255)
ggTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACg < 1:363564/76‑1 (MQ=255)
ggTCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACg < 1:750788/76‑1 (MQ=255)
tCCATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGc > 1:1768316/1‑76 (MQ=255)
ccATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCa > 1:1866600/1‑76 (MQ=255)
ccATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCa < 2:1670073/76‑1 (MQ=255)
cATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCaa > 1:495635/1‑76 (MQ=255)
cATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCaa > 2:26633/1‑76 (MQ=255)
cATACCTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCaa < 2:516178/76‑1 (MQ=255)
ccTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTg < 1:1190789/76‑1 (MQ=255)
ccTGCGTCTCCAACGGGGCGGTTTGACGAAGAAAATTGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTg < 2:1797215/76‑1 (MQ=255)
cTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTgg > 1:164621/1‑76 (MQ=255)
cTGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTgg < 2:1309394/76‑1 (MQ=255)
tGCGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGa < 2:988384/76‑1 (MQ=255)
gCGTCTGCATCAGTGCGGTCTTTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGaa < 2:912395/76‑1 (MQ=255)
gCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGaa > 1:1129356/1‑76 (MQ=255)
cGTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAAc > 2:770503/1‑76 (MQ=255)
cGTCTGCAACAGTGCGGTCCGCGGAAGAAAATGGGTCTGGTGCCGGTCAGAGCCTTCATCTCCGGCAAGCTGGAAc < 2:1224199/76‑1 (MQ=255)
gTCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACt > 2:10306/1‑76 (MQ=255)
tCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTg > 1:1439626/1‑76 (MQ=255)
tCTGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTg < 2:1062957/76‑1 (MQ=255)
tGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCg > 1:481475/1‑76 (MQ=255)
tGCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCg < 2:1704480/76‑1 (MQ=255)
gCATCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGt > 1:1222966/1‑76 (MQ=255)
aTCAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTgg > 1:1543676/1‑76 (MQ=255)
cAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTc < 1:1456593/76‑1 (MQ=255)
cAGTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTc > 2:976132/1‑76 (MQ=255)
gTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCtt < 2:753737/76‑1 (MQ=255)
gTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCtt < 2:1918295/76‑1 (MQ=255)
gTGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCtt > 1:1334881/1‑76 (MQ=255)
tGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACTGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTg > 1:1288949/1‑76 (MQ=255)
tGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTg > 1:430135/1‑76 (MQ=255)
tGCGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTg > 1:430116/1‑76 (MQ=255)
cGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCt > 2:1715112/1‑76 (MQ=255)
cGGTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTC‑TCCACGGCAAGCTGGAACTGCGTGGTCTTGGTa > 1:1864036/1‑76 (MQ=255)
ggTCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTa < 2:2015224/76‑1 (MQ=255)
tCTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTacc > 2:962056/1‑76 (MQ=255)
cTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTacca < 1:810302/76‑1 (MQ=255)
cTGTCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTacca < 1:212686/76‑1 (MQ=255)
|
AGCGTGTTGACTACTCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTACCA > REL606/4165994‑4166137
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ 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
