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 |
3,914,929 |
C→T |
S215F (TCC→TTC) |
ilvE → |
branched‑chain amino acid aminotransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,914,929 | 0 | C | T | 97.8%
| 155.4
/ ‑3.2
| 45 | S215F (TCC→TTC) | ilvE | branched‑chain amino acid aminotransferase |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (25/19); total (26/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.90e-01 |
TATATCTCTGAAGGCGCAGGCGAAAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTCCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTGGGAATTGATGTGCGTG > REL606/3914856‑3915000
|
tataTCTCTGAAGGCGCAGGCGAAAACGTGCTTGNAGTGCAANTTNGTNTGCTCTTCACCCCACCGTTCAccttct > 1:1590207/1‑76 (MQ=255)
atatCTCTGAAGGCGCAGGCGAAAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACcttctc > 1:407821/1‑76 (MQ=255)
tatCTCTGAAGGCGCAGGCGAAAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCttctcc < 1:1102583/76‑1 (MQ=255)
atCTCTGAAGGCGCAGGCGAGAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCcg > 1:94327/1‑76 (MQ=255)
atCTCTGAAGGCGCAGGCGAAAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCcg > 1:1307598/1‑76 (MQ=255)
atCTCTGAAGGCGCAGGCGAAAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCcg > 1:595154/1‑76 (MQ=255)
ctctGAAGGCGCAGGCGAAAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCcgcg < 2:1671318/76‑1 (MQ=255)
ctctGAAGGCGCAGGCGAAAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGATCACCTTCTCcgcg > 1:935125/1‑76 (MQ=255)
ctctGAAGGCGCAGGCGAAAACCTGTTNGAAGTGANNGATGGAGTGCTGTTCACCCCGCCGTTCATCTTCTCcgcg > 1:1806796/1‑76 (MQ=255)
ctGAAGGCGCAGGCGAAAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCt > 1:1311523/1‑76 (MQ=255)
ctGAAGGCGCAGGCGAAAACCTGTTTGAAGTGAAAGATGGAGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCt > 1:804307/1‑76 (MQ=255)
tggaGGCGCAGGCGAAAACCTGTTTGAAGTGAAAGATAGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTg < 2:250158/73‑1 (MQ=255)
gAAGGCGCAGGCGAAAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGc > 2:1269565/1‑76 (MQ=255)
gcAGGCGNCAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTa > 2:1470203/1‑76 (MQ=255)
cAGGCGAAAACCTGTTTGAGGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTAt < 2:25042/76‑1 (MQ=255)
cAGGCGAAAACCTGTTTGAAGTGAAAGNGGNTCNGCCGTTCNCCCCACAGTTCACCTTCTCCGCGCTGCCGGGTAt < 1:1587227/76‑1 (MQ=255)
aGGCGAAAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTAtt > 2:180511/1‑76 (MQ=255)
aGGCGAAAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTAtt > 2:1520437/1‑76 (MQ=255)
ggCGAAAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTa < 2:1268465/76‑1 (MQ=255)
gAAAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTAccc < 2:588090/76‑1 (MQ=255)
aaaaCCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCg > 2:1313647/1‑76 (MQ=255)
aaCCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTg < 1:865592/76‑1 (MQ=255)
tttGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCca > 1:387376/1‑76 (MQ=255)
tgaaaGTGAAAGATGGTGTGCTGTCCCCCCCCCCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCcat < 2:1175841/73‑1 (MQ=255)
tGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCcatc > 2:169064/1‑76 (MQ=255)
tGAAGGGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCcatc < 1:1399717/76‑1 (MQ=255)
gTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCAtcatca < 1:248058/76‑1 (MQ=255)
gAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCaaa < 1:1103481/76‑1 (MQ=255)
gAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCaaa > 2:1588330/1‑76 (MQ=255)
gAAAGATGGTGTGCTGTTAACCACACCNTTNACNTTTTCCGNGCTGCCGGGTATTACCCGTGATGCCATCATCaaa < 1:1593371/76‑1 (MQ=255)
aaaGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAAc > 2:701303/1‑76 (MQ=255)
aaGATGGTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACt > 2:1145010/1‑76 (MQ=255)
ggTGTGCTGTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGa > 1:182938/1‑76 (MQ=255)
gtgCTGTTCCCCCCACCGGTCCGCTTCNCCNCGNTGGCGGGNATGACCAGTGATGCCATCATCAAACTGGCGAAag < 1:1578324/76‑1 (MQ=255)
gtgCTGTTCACCCCACCGTGCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAag > 1:1556607/1‑76 (MQ=255)
tgCTGTTCACCCCACCGTTCACCTCCTCCGCGCTACCGGGTNTTACCCGTGATGCCATCANCANACTGGCGAAaga > 1:1490589/1‑76 (MQ=255)
gTTCACCCCCCCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTg < 2:1350199/76‑1 (MQ=255)
gTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTg > 2:1569113/1‑76 (MQ=255)
gTTCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTg > 2:1126306/1‑76 (MQ=255)
tCACCCCACCGTTTACCTTCNCCGCGCTGCAGGGTANTACCCGTGATGCCATTATCAATCTGGCGAAAGAGCTggg < 2:1825618/76‑1 (MQ=255)
tCACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAATNAGCTggg < 2:1476052/76‑1 (MQ=255)
cACCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTGGGa > 1:597359/1‑76 (MQ=255)
aCCCCACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTGGGaa < 1:444753/76‑1 (MQ=255)
ccccACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTGGGAAt > 2:749791/1‑76 (MQ=255)
ccccACCGTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTGGGAAt < 2:1695513/76‑1 (MQ=255)
gTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTGGGAATTGAtgtg < 2:1421895/76‑1 (MQ=255)
gTTCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTGGGAATTGAtgtg > 1:1126916/1‑76 (MQ=255)
tCACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTCGGAATTGATGTGCg > 2:337041/1‑76 (MQ=255)
cACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTGGGAATTGATGTGCGt > 2:1360615/1‑76 (MQ=255)
cACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTGGGAATTGATGTGCGt > 2:1360611/1‑76 (MQ=255)
cACCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTGGGAATTGATGTGCGt > 2:1018690/1‑76 (MQ=255)
aCCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTGGGAATTGATGTGCGTg < 1:536111/76‑1 (MQ=255)
aCCTTCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTGGGAATTGATGTGCGTg < 1:1365348/76‑1 (MQ=255)
|
TATATCTCTGAAGGCGCAGGCGAAAACCTGTTTGAAGTGAAAGATGGTGTGCTGTTCACCCCACCGTTCACCTCCTCCGCGCTGCCGGGTATTACCCGTGATGCCATCATCAAACTGGCGAAAGAGCTGGGAATTGATGTGCGTG > REL606/3914856‑3915000
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
