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 |
|
A43 F1 I1 R1
|
17 |
61.8 |
3886062 |
97.4% |
3785024 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
1,332,148 |
(T)6→5 |
intergenic (+131/‑79) |
topA → / → cysB |
DNA topoisomerase I/DNA‑binding transcriptional dual regulator, O‑acetyl‑L‑serine‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 1,332,143 | 0 | T | . | 96.2%
| 239.7
/ 4.1
| 52 | intergenic (+126/‑84) | topA/cysB | DNA topoisomerase I/DNA‑binding transcriptional dual regulator, O‑acetyl‑L‑serine‑binding |
| Reads supporting (aligned to +/- strand): ref base T (0/2); new base . (27/23); total (27/25) |
| Fisher's exact test for biased strand distribution p-value = 2.26e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01 |
TTTTTATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑TTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTAAGT > REL606/1332068‑1332214
|
tttttATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑t < 1:1425333/76‑1 (MQ=255)
tttATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑ttt > 2:1408538/1‑76 (MQ=255)
tttATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑ttt > 1:1654222/1‑76 (MQ=255)
ttATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑tttt < 1:1890920/76‑1 (MQ=255)
tATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑ttttt < 1:670039/76‑1 (MQ=255)
tATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑ttttt < 2:1782629/76‑1 (MQ=255)
atatTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTttattatt > 1:1855963/1‑76 (MQ=255)
tattatTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTttattatta > 2:890444/1‑76 (MQ=255)
tattatTTTTTCTTCACACCTATACACTAAGGCGATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTttattatta < 2:124762/76‑1 (MQ=255)
attattTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTaa < 2:233875/76‑1 (MQ=255)
ttattTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑TTTTTTATTATTaa < 1:904842/76‑1 (MQ=255)
tattTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAAt < 1:512266/76‑1 (MQ=255)
ttttttCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCg < 1:1536371/76‑1 (MQ=255)
tttttCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGt < 1:1743694/76‑1 (MQ=255)
tttttCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGt < 1:628073/76‑1 (MQ=255)
tttttCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGt < 1:584611/76‑1 (MQ=255)
tttttCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGt < 1:508400/76‑1 (MQ=255)
tttttCTTCACACCTATACACTAAGGCTATAAATGATATAGTAGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGt > 1:1363178/1‑76 (MQ=255)
tttCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTAt < 1:46058/76‑1 (MQ=255)
tcttcACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTa > 1:1189439/1‑76 (MQ=255)
tcttcACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTa > 1:304051/1‑76 (MQ=255)
ttcACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCTCC‑‑TGNTTATTATTAAATCGTATTAGt > 2:316909/1‑76 (MQ=255)
ttcACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGt < 2:1177614/76‑1 (MQ=255)
cacaCCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACCTTTTTTTATTATTAAATCGTATTAGt < 1:380523/76‑1 (MQ=255)
cacaCCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCa < 2:1566779/76‑1 (MQ=255)
cacaCCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCa < 2:134773/76‑1 (MQ=255)
cacaCCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCa < 1:1371066/76‑1 (MQ=255)
cacCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCAcc > 2:1468340/1‑76 (MQ=255)
ccTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCg < 1:1826071/76‑1 (MQ=255)
tataCACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGcc < 2:615062/76‑1 (MQ=255)
ataCACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCa < 2:1894208/76‑1 (MQ=255)
taCACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAg < 2:651774/76‑1 (MQ=255)
acacTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAgg < 2:423535/76‑1 (MQ=255)
cacTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGgt > 2:1204042/1‑76 (MQ=255)
acTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGgtg > 1:1085697/1‑76 (MQ=255)
tAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGtgtg > 1:955624/1‑76 (MQ=255)
tAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGtgtg > 2:608827/1‑76 (MQ=255)
aaGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGa > 1:1105963/1‑76 (MQ=255)
aaGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGa < 2:225871/76‑1 (MQ=255)
tataAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGaaa > 2:752645/1‑76 (MQ=255)
taAATGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGaaaaa < 2:241853/76‑1 (MQ=255)
aaaTGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGaaaaaa > 1:1456576/1‑76 (MQ=255)
aaaTGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGaaaaaa > 1:883475/1‑76 (MQ=255)
aaaTGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGaaaaaa > 1:499773/1‑76 (MQ=255)
aaaTGATATAGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGaaaaaa > 1:1742979/1‑76 (MQ=255)
tataGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGt > 1:553692/1‑76 (MQ=255)
aGTGGTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCt > 1:642105/1‑76 (MQ=255)
gTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATg > 1:294130/1‑76 (MQ=255)
gTTATAGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATg < 2:1912440/76‑1 (MQ=255)
tataGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGc > 1:164500/1‑76 (MQ=255)
tataGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGc > 1:1256550/1‑76 (MQ=255)
ataGTTAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCg > 1:1121195/1‑76 (MQ=255)
ttAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTa > 1:890886/1‑76 (MQ=255)
tAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTaa > 1:1014856/1‑76 (MQ=255)
tAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTaa > 2:291689/1‑76 (MQ=255)
tAGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCAGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTaa > 2:229327/1‑76 (MQ=255)
aGCACC‑TTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTaa < 1:4555/76‑1 (MQ=255)
aGCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTAAg < 2:1493694/76‑1 (MQ=255)
gCACC‑‑TTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTAAGt < 2:1189439/76‑1 (MQ=255)
|
TTTTTATTGCATATTATTTTTTCTTCACACCTATACACTAAGGCTATAAATGATATAGTGGTTATAGTTAGCACC‑TTTTTTATTATTAAATCGTATTAGTCACCCGCCAGGTGTGACGAAAAAACGATGTTCTGATGGCGTCTAAGT > REL606/1332068‑1332214
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
