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 |
|
A9 F1 I1 R1
|
16 |
55.7 |
3673927 |
94.4% |
3468187 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,164,822 |
T→G |
F1323V (TTC→GTC) |
rpoB → |
DNA‑directed RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,164,822 | 0 | T | G | 95.3%
| 262.6
/ 0.2
| 64 | F1323V (TTC→GTC) | rpoB | DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base T (3/0); new base G (43/18); total (46/18) |
| Fisher's exact test for biased strand distribution p-value = 5.53e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.83e-01 |
GAACGGTCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAA > REL606/4164749‑4164895
|
gAACGGTCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTc > 1:582869/1‑76 (MQ=255)
aaCGGTCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCa > 2:1085451/1‑76 (MQ=255)
aaCGGTCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGACATGCCAGAATCCGTCa < 2:399473/76‑1 (MQ=255)
cGGTCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAAc > 1:332722/1‑76 (MQ=255)
gTCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGt > 1:839412/1‑76 (MQ=255)
tCGTACCAAGTTGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCATAATCCGTCAACGTa > 1:157838/1‑76 (MQ=255)
cGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAt > 1:1665961/1‑76 (MQ=255)
gTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAtt < 1:59428/76‑1 (MQ=255)
tACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAttg > 2:830259/1‑76 (MQ=255)
aCCAAGATGTGTAAAAAGATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATACGTCAACGTAttgt > 1:157901/1‑76 (MQ=255)
aCCAAGATGTGTAAAAAGATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATACGTCAACGTAttgt > 1:157918/1‑76 (MQ=255)
ccAAGATGTATAAAAACATCGTGGACGGNTACCATCAGATGGAGCCGGTCNTGCCAGAATCCGTCAACGTAttgtt > 1:276275/1‑76 (MQ=255)
ccAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAttgtt < 2:973432/76‑1 (MQ=255)
cAAGATGTATAAAAATATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAttgttg > 1:174746/1‑76 (MQ=255)
aaGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGa < 2:1002949/76‑1 (MQ=255)
aaGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGa > 2:1275845/1‑76 (MQ=255)
aGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGaa < 2:951154/76‑1 (MQ=255)
gATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGaaa > 1:937266/1‑76 (MQ=255)
aTGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAag > 1:720476/1‑76 (MQ=255)
tGTATAAAAACATCGTGGACGGCAACCATCAGATGGACCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAaga > 1:1537154/1‑76 (MQ=255)
gTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGCAagag < 1:113948/76‑1 (MQ=255)
tataAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAgaga > 1:681854/1‑76 (MQ=255)
tataAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAgaga > 1:384640/1‑76 (MQ=255)
taAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGAtt < 1:1266144/76‑1 (MQ=255)
taAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGAtt < 1:1052688/76‑1 (MQ=255)
naaaaaCATCGTGGANGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTNGAAAGAGAtt < 2:1237705/75‑1 (MQ=255)
cATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGAttcgttcg < 2:764697/76‑1 (MQ=255)
aTCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATTCGTTCGc > 1:1007097/1‑76 (MQ=255)
tCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCt > 2:1313250/1‑76 (MQ=255)
gTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTgg < 1:598249/76‑1 (MQ=255)
tGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTggg > 2:1548543/1‑76 (MQ=255)
tGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTggg > 2:1196858/1‑76 (MQ=255)
ggACGGCAACCATCAGATGGAGCCGGGCATGTCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGt > 1:1081763/1‑76 (MQ=255)
ggACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGt > 2:377274/1‑76 (MQ=255)
gACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTa > 2:1298516/1‑76 (MQ=255)
gACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTa > 1:1043861/1‑76 (MQ=255)
cGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATc > 2:1190931/1‑76 (MQ=255)
cGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATc < 1:604469/76‑1 (MQ=255)
ggCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCa < 1:1046244/76‑1 (MQ=255)
cAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAAc > 1:255550/1‑76 (MQ=255)
cAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAAc > 2:1007038/1‑76 (MQ=255)
aCCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACAt < 1:1295240/76‑1 (MQ=255)
aTCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGa > 2:1357043/1‑76 (MQ=255)
tCAGATGGAGCCGGGCATGCCAGAATCCGTCAACCTANTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGaa > 1:1785101/1‑76 (MQ=255)
cAGATGGAGCCGGGCATGCCAGAATCCNTCAACGTNNTGTTGGAAGAGATTCGTTCGATGGGTATCAACATCGAAc > 1:1796107/1‑76 (MQ=255)
aTGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTgg > 2:1057309/1‑76 (MQ=255)
aTGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTgg > 1:423127/1‑76 (MQ=255)
tGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGa > 1:1010470/1‑76 (MQ=255)
tGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGa > 1:1470239/1‑76 (MQ=255)
ggAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGaa > 2:476085/1‑76 (MQ=255)
gAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAg > 1:724918/1‑76 (MQ=255)
aGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGACGa > 1:334310/1‑76 (MQ=255)
aGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGa > 1:450306/1‑76 (MQ=255)
ccGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACg < 1:1054682/76‑1 (MQ=255)
cGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGa > 1:344736/1‑76 (MQ=255)
cGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGa > 2:911830/1‑76 (MQ=255)
ggCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGt < 1:1022058/76‑1 (MQ=255)
gCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTa > 1:707461/1‑76 (MQ=255)
cATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTaa < 1:369566/76‑1 (MQ=255)
tGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAAtt < 1:1190932/76‑1 (MQ=255)
gCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCTCTGGGTATCAACATCGAACTAGACGAAGAGTAATtc > 1:21129/1‑76 (MQ=255)
aGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCg > 2:608684/1‑76 (MQ=255)
aGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCg > 1:578786/1‑76 (MQ=255)
aTCCGTCAACGTATTGTTGCAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTc > 1:1546316/1‑76 (MQ=255)
ccTTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCaa > 2:206414/1‑76 (MQ=255)
|
GAACGGTCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAA > REL606/4164749‑4164895
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ 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
