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 |
|
A51 F1 I1 R1
|
20 |
58.0 |
3778966 |
96.2% |
3635365 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,029,134 |
T→C |
intergenic (‑673/+388) |
ECB_02828 ← / ← yghD |
Polysialic acid transport protein kpsM/predicted secretion pathway M‑type protein, membrane anchored |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,029,134 | 0 | T | C | 89.9%
| 241.5
/ 13.8
| 69 | intergenic (‑673/+388) | ECB_02828/yghD | Polysialic acid transport protein kpsM/predicted secretion pathway M‑type protein, membrane anchored |
| Reads supporting (aligned to +/- strand): ref base T (3/4); new base C (36/26); total (39/30) |
| Fisher's exact test for biased strand distribution p-value = 6.90e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.89e-01 |
AACCAGTGTTACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGTTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAATTTTACTAATTTCCAA > REL606/3029062‑3029205
|
aaCCAGTGTTACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTc > 2:1562854/1‑76 (MQ=255)
aaCCAGTGTTACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTc < 1:964630/76‑1 (MQ=255)
aaCCAGTGTTACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTc < 1:417816/76‑1 (MQ=255)
aCCAGTGTTACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCa < 1:108292/76‑1 (MQ=255)
aCCAGTGTTACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCa < 1:64477/76‑1 (MQ=255)
ccAGTGTTACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCAc > 1:693842/1‑76 (MQ=255)
cAGTGTTACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACt > 2:999400/1‑76 (MQ=255)
aGTGTTACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGTTTCACTg < 1:618161/76‑1 (MQ=255)
aGTGTTACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAACAGTTTCACTg < 1:706473/76‑1 (MQ=255)
gtTACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGaa > 1:543580/1‑76 (MQ=255)
ttACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGaaa > 2:49946/1‑76 (MQ=255)
ttACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGaaa > 1:434224/1‑76 (MQ=255)
tACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAat > 2:975351/1‑76 (MQ=255)
tACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAat < 1:1260230/76‑1 (MQ=255)
caaccaacACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAatta > 2:1885245/1‑76 (MQ=255)
caaccaacACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAatta > 2:42480/1‑76 (MQ=255)
aaccaacACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAattat > 2:1664465/1‑76 (MQ=255)
aaccaacACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAattat > 2:199607/1‑76 (MQ=255)
accaacGCCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGTTTCACTGGAAattatt < 2:1276845/76‑1 (MQ=255)
accaacACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGTTTCACTGGAAattatt > 1:599145/1‑76 (MQ=255)
accaacACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAattatt < 2:324676/76‑1 (MQ=255)
naacACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATtattat > 1:1576907/2‑76 (MQ=255)
caacACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATtattat > 2:439549/1‑76 (MQ=255)
cacCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGca < 2:239683/76‑2 (MQ=255)
tCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTangt < 2:1326220/76‑4 (MQ=255)
tCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTAttt < 1:1699162/76‑1 (MQ=255)
cccTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGTTTCACTGGAAATTATTATGCTTATTTg > 2:1702320/1‑76 (MQ=255)
cccTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTg > 2:991397/1‑76 (MQ=255)
aGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAAtt < 2:1422501/76‑1 (MQ=255)
tAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTcc > 2:605460/1‑76 (MQ=255)
tAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTcc > 2:1481122/1‑76 (MQ=255)
tAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTcc > 2:1551384/1‑76 (MQ=255)
atatACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCtt > 2:1307299/1‑76 (MQ=255)
atatACCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCtt < 1:889373/76‑1 (MQ=255)
ataCCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTa < 1:232810/60‑1 (MQ=255)
ataCCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTa > 2:232810/1‑60 (MQ=255)
ataCCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTc < 2:153755/76‑1 (MQ=255)
aCCTGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTg < 1:592219/76‑1 (MQ=255)
ccTGAGCAGACATGTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGa < 2:733654/76‑1 (MQ=255)
tGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGAtt > 1:1197006/1‑76 (MQ=255)
tGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGAtt < 2:1524274/76‑1 (MQ=255)
tGAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGAtt > 1:928430/1‑76 (MQ=255)
gAGCAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTa < 2:396382/76‑1 (MQ=255)
cAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTAtct > 2:1552616/1‑76 (MQ=255)
cAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTAtct > 1:711998/1‑76 (MQ=255)
cAGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTAtct > 2:226769/1‑76 (MQ=255)
aGACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTAtctc < 2:1845265/76‑1 (MQ=255)
gACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTcc < 1:1232946/76‑1 (MQ=255)
gACATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTcc < 2:377086/76‑1 (MQ=255)
gACACTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTCTCTGATTATCTcc < 2:377097/76‑1 (MQ=255)
aCATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCa < 2:741404/76‑1 (MQ=255)
cATTTCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAg < 2:998410/76‑1 (MQ=255)
tttCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGa > 2:816767/1‑76 (MQ=255)
ttCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGaa < 1:69601/76‑1 (MQ=255)
tCTTAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAAt > 2:697501/1‑76 (MQ=255)
tAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAAtttt > 2:567756/1‑76 (MQ=255)
tAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAAtttt > 1:797168/1‑76 (MQ=255)
tAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAAtttt > 1:49684/1‑76 (MQ=255)
tAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAAtttt > 2:106660/1‑76 (MQ=255)
tAAAATCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAAtttt > 1:1000240/1‑76 (MQ=255)
aaaTCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAATTTTAc > 2:679997/1‑76 (MQ=255)
aaTCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAATTTTACt < 2:532160/76‑1 (MQ=255)
tCAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAATTTTACTaa > 2:911947/1‑76 (MQ=255)
cAACGAATAGTTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAATTTTACTAAt > 2:910047/1‑76 (MQ=255)
cAACGAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAATTTTACTAAt < 1:1562854/76‑1 (MQ=255)
gAATAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAATTTTACTAATTTcc > 2:668011/1‑76 (MQ=255)
aaTAGTTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAATTTTACTAATTTCCa < 2:1592358/76‑1 (MQ=255)
aaTAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAATTTTACTAATTTCCa > 1:1262527/1‑76 (MQ=255)
aTAGCTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAATTTTACTAATTTCCaa > 2:860181/1‑76 (MQ=255)
|
AACCAGTGTTACAACCAACACCATCCCTCAGTAGATATACCTGAGCAGACATTTCTTAAAATCAACGAATAGTTTCACTGGAAATTATTATGCTTATTTGAAATTCCCTTTCTGATTATCTCCAGGAATTTTACTAATTTCCAA > REL606/3029062‑3029205
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
