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 |
|
A42 F1 I1 R1
|
17 |
53.4 |
3386926 |
97.4% |
3298865 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
2,997,463 |
(A)9→8 |
coding (131/903 nt) |
ECB_02798 → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 2,997,455 | 0 | A | . | 97.6%
| 194.9
/ ‑0.9
| 42 | coding (123/903 nt) | ECB_02798 | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base . (24/17); total (24/18) |
| Fisher's exact test for biased strand distribution p-value = 4.29e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
TTATCTTGGAGAGCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACATAAAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAAATAATTTCTGGTATGC > REL606/2997380‑2997525
|
ttatCTTGGAGAGCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACATa > 2:1512698/1‑76 (MQ=255)
tatCTTGGAGAGCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACATaa < 2:972463/76‑1 (MQ=255)
tatCTTGGAGAGCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACATaa < 2:1297245/76‑1 (MQ=255)
atCTTGGAGAGCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACATaaa > 1:814165/1‑76 (MQ=255)
atCTTGGAGAGCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACATaaa < 2:1133428/76‑1 (MQ=255)
tCTTGGAGAGCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACATaaaa < 1:1119402/76‑1 (MQ=255)
cTTGGAGAGCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACATaaaaa > 1:1198676/1‑76 (MQ=255)
cTTGGAGAGCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACATaaaaa > 2:1617304/1‑76 (MQ=255)
tGGAGAGCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAAGGTTTTATCGCTTACATaaaaaaa > 2:121145/1‑76 (MQ=255)
tGGAGAGCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACATaaaaaaa < 2:1611966/76‑1 (MQ=255)
tGGAGAGCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACATaaaaaaa > 2:1611222/1‑76 (MQ=255)
tGGAGAGCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACATaaaaaaa > 1:1641621/1‑76 (MQ=255)
agagCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACATaaaaaaaaca > 2:1527090/1‑74 (MQ=255)
gagCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACATaaaaaaaacag < 2:885093/76‑4 (MQ=255)
gCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACagag > 2:990820/1‑76 (MQ=255)
gTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGaa < 1:63169/76‑1 (MQ=255)
aaTATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGaaaa < 2:1669344/76‑1 (MQ=255)
aaTATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGaaaa > 1:85504/1‑76 (MQ=255)
atCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCt < 2:1198676/76‑1 (MQ=255)
ccGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAAc > 1:1469594/1‑76 (MQ=255)
gTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACAt > 2:996246/1‑76 (MQ=255)
gTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACAt < 2:1373323/76‑1 (MQ=255)
cccTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACtt > 1:149596/1‑76 (MQ=255)
ccTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACttt < 2:1182250/76‑1 (MQ=255)
cTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTc < 2:1689899/76‑1 (MQ=255)
cTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTc < 1:655155/76‑1 (MQ=255)
tAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAg > 1:1589303/1‑76 (MQ=255)
aaTGTTTATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGa > 1:1051989/1‑76 (MQ=255)
tGTTTATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGAtt < 1:820335/76‑1 (MQ=255)
tttATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGAtttt > 1:1051045/1‑76 (MQ=255)
tttATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGAtttt > 2:398607/1‑76 (MQ=255)
ttATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTttg < 1:1024013/76‑1 (MQ=255)
ttATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTttg > 2:204727/1‑76 (MQ=255)
ttATGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTttg < 1:1456857/76‑1 (MQ=255)
tGATCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTttgaac > 1:1431288/1‑76 (MQ=255)
aTCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTttgaactt > 2:808411/1‑76 (MQ=255)
aTCCCCCGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTttgaactt > 2:1325504/1‑76 (MQ=255)
ccGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACa < 1:505963/76‑1 (MQ=255)
cGGAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCATACTTTCAGATTTTGAACTTGAACaa > 2:1103363/1‑76 (MQ=255)
ggAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACaaa < 2:869740/76‑1 (MQ=255)
gAACGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAaat < 1:454754/76‑1 (MQ=255)
aaCGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAaata > 2:1093663/1‑76 (MQ=255)
aaCGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAaata > 2:1093670/1‑76 (MQ=255)
cGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAaataat < 2:94997/76‑1 (MQ=255)
cGTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTGTCAGNTTTTGAACTTGAACAaataat > 2:268013/1‑76 (MQ=255)
gTTTTATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGACCATCACACTTTCAGATTTTGACCTTGAACAAATAAtt > 1:695577/1‑76 (MQ=255)
ttttATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAAATAAttt > 1:800774/1‑76 (MQ=255)
tttATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAAATAATTTc > 1:124976/1‑76 (MQ=255)
tttATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAAATAATTTc > 1:1582442/1‑76 (MQ=255)
ttATCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAAATAATTTCt < 2:1641621/76‑1 (MQ=255)
aTCGCTTACATAAAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAAATAATTTCTg < 2:1448106/76‑1 (MQ=255)
tCGCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAAATAATTTCTGGt > 2:1217125/1‑76 (MQ=255)
gCTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAAATAATTTCTGGTAt < 1:1666840/76‑1 (MQ=255)
cTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAAATAATTTCTGGTATg > 2:338518/1‑76 (MQ=255)
cTTACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAAATAATTTCTGGTATg > 1:481122/1‑76 (MQ=255)
ttACAT‑AAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAAATAATTTCTGGTATGc < 1:1145983/76‑1 (MQ=255)
|
TTATCTTGGAGAGCGTAATATCTCCGTACTGCCCCTTAATGTTTATGATCCCCCGGAACGTTTTATCGCTTACATAAAAAAAAACAGAGAAAATCTGAACATCACACTTTCAGATTTTGAACTTGAACAAATAATTTCTGGTATGC > REL606/2997380‑2997525
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
