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 |
|
A86 F1 I1 R1
|
15 |
50.6 |
3276358 |
95.9% |
3142027 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,346,924 |
G→A |
intergenic (+422/‑117) |
yhdV → / → yhdW |
predicted outer membrane protein/predicted amino‑acid transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,346,924 | 0 | G | A | 92.6%
| 187.7
/ 0.7
| 54 | intergenic (+422/‑117) | yhdV/yhdW | predicted outer membrane protein/predicted amino‑acid transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (1/3); new base A (27/23); total (28/26) |
| Fisher's exact test for biased strand distribution p-value = 3.42e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTTATAAGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAATCAGG > REL606/3346851‑3346996
|
cTTATAAGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGa < 2:270683/76‑1 (MQ=255)
ttATAAGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGaa < 2:374734/76‑1 (MQ=255)
tataAGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACaagaag < 1:596462/76‑1 (MQ=255)
tataAGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACaagaag < 2:1483274/76‑1 (MQ=255)
ataAGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGc > 1:314108/1‑76 (MQ=255)
ataAGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGc < 1:896557/76‑1 (MQ=255)
taAGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCa > 2:1193680/1‑76 (MQ=255)
agagGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCAtt < 2:228162/76‑1 (MQ=255)
gagGATGGCCTCAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTa < 2:1125505/76‑1 (MQ=255)
gagGATGGCCCCAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTa < 2:1125518/76‑1 (MQ=255)
ggATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATg < 2:1517930/76‑1 (MQ=255)
gATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGa > 2:1176951/1‑76 (MQ=255)
aaggCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGaa > 1:177397/3‑76 (MQ=255)
aTGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGaa > 1:1553361/1‑76 (MQ=255)
tGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGaaa < 1:456843/76‑1 (MQ=255)
ggCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGaaaa > 1:1380059/1‑76 (MQ=255)
gCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGaaaaa < 2:1503209/76‑1 (MQ=255)
acagacagGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAgat < 1:625680/76‑1 (MQ=255)
cagacagGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAgatg > 2:89452/1‑76 (MQ=255)
cagacagGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAgatg > 1:11131/1‑76 (MQ=255)
agacagGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAgatga < 1:1560515/76‑1 (MQ=255)
agacagGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAgatga > 1:1618325/1‑76 (MQ=255)
agacagGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAgatga > 1:552208/1‑76 (MQ=255)
cagGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAgatgatga < 1:147318/76‑1 (MQ=255)
cagGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAgatgatga < 2:1420448/76‑1 (MQ=255)
agGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAgatgatgat < 1:480672/76‑1 (MQ=255)
ggTAAAAGACGTTTGCCAAACGTGGTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATa < 1:254589/76‑1 (MQ=255)
tAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGc > 2:1577241/1‑76 (MQ=255)
tAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGc < 1:465881/76‑1 (MQ=255)
tAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGc > 1:356698/1‑76 (MQ=255)
aaaaGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGcc > 1:166656/1‑76 (MQ=255)
aaaGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCca < 2:1125464/76‑1 (MQ=255)
aaGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCcac > 2:201319/1‑76 (MQ=255)
aGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCcaca < 1:847698/76‑1 (MQ=255)
tttCCCAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGc > 2:1160691/1‑76 (MQ=255)
cccAAACGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTgg > 2:237330/1‑75 (MQ=255)
cAAACTTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATAATAGCCACACTGGCTgccg < 1:536263/76‑1 (MQ=255)
aaCGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTgccgcc > 2:1410407/1‑76 (MQ=255)
aaCGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTgccgcc < 2:1000015/76‑1 (MQ=255)
cGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACGCTGGCTGGCGCAAg > 2:1546712/1‑76 (MQ=255)
cGTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAg < 1:405940/76‑1 (MQ=255)
gTCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGc < 2:1082110/76‑1 (MQ=255)
tCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCg < 1:63154/76‑1 (MQ=255)
tCCTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCg < 1:536368/76‑1 (MQ=255)
cTATAACGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGGCGCCcgcggg > 2:1122030/1‑74 (MQ=255)
aaCGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGtgttgc > 1:541987/1‑76 (MQ=255)
aaCGATAATTTTCACCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCCGCGcgctgc > 1:1078716/1‑76 (MQ=255)
cGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCtt < 1:198004/76‑1 (MQ=255)
cGATAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCtt < 2:314108/76‑1 (MQ=255)
aTAATTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCCGCGGGCCGCtttc > 1:248589/1‑74 (MQ=255)
aTTTTCGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACCCTGGCTGCCGCCAGCGTGCTGCTTGCCGt < 2:1577752/76‑1 (MQ=255)
cGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCCGCGCGCGGCCTCCCGCTGcgc > 1:478032/1‑74 (MQ=255)
cGCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCaa < 2:1502973/76‑1 (MQ=255)
gCCTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCCGCGGGCTGCCTACCGGCGCaaa > 2:1146470/1‑76 (MQ=255)
ccTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCCCCCGCGGGCTGCTTGGCGTTGCGAAt > 1:1042915/1‑76 (MQ=255)
ccTCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCCGCGCGCTGCTTGCCGTTGCcaaa > 2:1036010/1‑75 (MQ=255)
tCACAAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCCCCAGCGTGCTGCTTGCCGGTGCAAATCa > 2:473067/1‑76 (MQ=255)
cacaAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAATCAg < 2:1421823/76‑1 (MQ=255)
acaAGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGGGCTGCTTGCCGGTGCAAATCaag > 1:689073/1‑74 (MQ=255)
|
CTTATAAGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAATCAGG > REL606/3346851‑3346996
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ 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
