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 |
|
A0 F0 I1 R1
|
715 |
38.4 |
1606192 |
96.6% |
1551581 |
120.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,709,561 |
(C)6→7 |
coding (915/1692 nt) |
eptB ← |
KDO phosphoethanolamine transferase, Ca(2+)‑inducible |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,709,555 | 1 | . | C | 97.5%
| 139.0
/ ‑3.2
| 40 | coding (921/1692 nt) | eptB | KDO phosphoethanolamine transferase, Ca(2+)‑inducible |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base C (18/21); total (19/21) |
| Fisher's exact test for biased strand distribution p-value = 4.75e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.68e-01 |
GTTGTCCGCCATCGTGTTGCTGTAGAACCACATTTCGCTCTGCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCG‑CCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTGGGCCAGTTTCGGCGTGGTATTACGCTCATAGCCGAA > NC_000913/3709423‑3709680
|
gttgtCCGCCATCGTGTTGCTGTAGAACCACATTTCGCTCTGCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCG‑ccc‑‑ccc < 2:637873/139‑1 (MQ=255)
gttgtCCGCCATCGTGTTGCTGTAGAACCACATTTCGCTCTGCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCG‑ccc‑‑ccc > 2:523351/1‑139 (MQ=255)
gttgtCCGCCATCGTGTTGCTGTAGAACCACATTTCGCTCTGCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCG‑ccc‑‑ccc < 2:26418/139‑1 (MQ=255)
ttgtCCGCCATCGTGTTGCTGTAGAACCACATTTCGCTCTGCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCG‑ccc‑‑cccc < 1:727248/139‑2 (MQ=255)
cTGTAGAACCACATTTCGCTCTGCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCaa < 2:506112/139‑1 (MQ=255)
cTGTAGAACCACATTTCGCTCTGCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCaa < 1:46930/139‑1 (MQ=255)
caTTTCGCTCTGCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGagag < 2:555719/139‑1 (MQ=255)
caTTTCGCTCTGCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTATTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGGGagag > 2:498115/1‑139 (MQ=255)
tttCGCTCTGCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGtt < 2:9885/139‑1 (MQ=255)
cGCTCTGCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTgg > 1:118963/1‑139 (MQ=255)
gCTCTGCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGt < 2:547738/139‑1 (MQ=255)
ctctGCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGtt > 1:717731/1‑139 (MQ=255)
ctGCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGc < 1:103472/139‑1 (MQ=255)
gCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCgg > 2:274003/1‑139 (MQ=255)
gCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCgg < 2:461828/139‑1 (MQ=255)
gCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCG‑CCCCACCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCg > 1:406315/1‑139 (MQ=255)
cGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATcac > 1:205652/1‑139 (MQ=255)
cGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATcac > 1:482954/1‑139 (MQ=255)
agGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCcgcg > 1:402733/1‑81 (MQ=255)
agGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCcgcg < 2:402733/81‑1 (MQ=255)
aGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAAcc > 2:752855/1‑139 (MQ=255)
aaTCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAAc > 2:280114/1‑139 (MQ=255)
aaTCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAAc > 1:422583/1‑139 (MQ=255)
ttCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGAttt > 2:693210/1‑139 (MQ=255)
ttCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGAttt < 1:706994/139‑1 (MQ=255)
tCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCgcg‑c > 1:43483/1‑57 (MQ=255)
tCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCgcg‑c < 2:43483/57‑1 (MQ=255)
cgAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACg > 1:441273/1‑74 (MQ=255)
cgAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACg < 2:441273/74‑1 (MQ=255)
cgAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGt < 2:33161/78‑1 (MQ=255)
cgAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGt > 1:33161/1‑78 (MQ=255)
cgAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTggg > 1:751885/1‑139 (MQ=255)
cgAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTggg > 2:501920/1‑139 (MQ=255)
cgAAAATGTTCTGCTCTTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACACGAGTAACCACGGAACGCCGCCAGATTTGTCTCCTggg > 1:549567/1‑139 (MQ=255)
gAAAATGTTCTGTTCTTTTAATGTGCGCTGGGGATTATCTTCCGCGCCCC‑‑CCCGGACGTACAAACATGCACCGCGGTGAGAGTTTGGTTGCCGTATCACAGGAGTAACAACGGAACGCCGCCAGATTTTTCTCCTGGGc < 1:427638/139‑1 (MQ=255)
gttctgttctTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTGGGCCAGttt < 1:523351/139‑1 (MQ=255)
gttctTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTGGGCCAGTTTCGGCg < 2:228272/139‑1 (MQ=255)
gttctTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTGGGCCAGTTTCGGCg < 1:14946/139‑1 (MQ=255)
ttctTTTAATGTGCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTGGGCCAGTTTCGGCGt < 2:205652/139‑1 (MQ=255)
gtgCGCTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTGGGCCAGTTTCGGCGTGGTATTACGc > 2:661519/1‑139 (MQ=255)
cgcTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACGGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTGGGCCAGTTTCGGCGTGGTATTACGCTCa > 2:624375/1‑139 (MQ=255)
cgcTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTGGGCCAGTTTCGGCg > 2:187691/1‑125 (MQ=255)
cgcTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTGGGCCAGTTTCGGCg < 1:187691/125‑1 (MQ=255)
cTGCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTGGGCCAGTTTCGGCGTGGTATTACGCTCATa < 2:615621/139‑1 (MQ=255)
gCGGATTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTGGGCCAGTTTCGGCGTGGTATTACGCTCATAGc < 1:392789/139‑1 (MQ=255)
aTTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTGGGCCAGTTTCGGCGTGGTATTACGCTCATAGCCGaa < 2:482954/139‑1 (MQ=255)
aTTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTGGGCCAGTTTCGGCGTGGTATTACGCTCATAGCCGaa < 1:248930/139‑1 (MQ=255)
aTTATCTTCCGCGCCCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTGGGCCAGTTTCGGCGTGGTATTACGCTCATAGCCGaa < 1:501920/139‑1 (MQ=255)
|
GTTGTCCGCCATCGTGTTGCTGTAGAACCACATTTCGCTCTGCATAGCGTAGAGGTCAGAACTGAATCCTAACTGCTTCAGAACCGCGAAAATGTTCTGTTCTTTTAATGTGCGCTGCGGATTATCTTCCGCG‑CCC‑‑CCCTGACGTACAAACATGCAACGCAGTGAGAGTTTGGTTGCGGTATCACAGGAGTAACCACGGAACGCCGCCAGATTTTTCTCCTGGGCCAGTTTCGGCGTGGTATTACGCTCATAGCCGAA > NC_000913/3709423‑3709680
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
