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 |
|
A3 F1 I1 R1
|
781 |
46.9 |
2231650 |
93.5% |
2086592 |
109.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,189,853 |
(T)7→8 |
coding (595/672 nt) |
phoP ← |
response regulator in two‑component regulatory system with PhoQ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,189,846 | 1 | . | T | 100.0%
| 142.1
/ NA
| 44 | I201N (ATT→AAT) | phoP | response regulator in two‑component regulatory system with PhoQ |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base T (18/26); total (18/26) |
TGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAA‑TTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAA > NC_000913/1189711‑1189978
|
tGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAA‑ttt > 2:989973/1‑139 (MQ=255)
gCCGTTGCCAACAGAAAACGTACCCGCAGAGAGAGCGGGAAAAAATGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAA‑tttt > 2:641674/1‑139 (MQ=255)
aGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTTTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGAc < 1:641674/139‑1 (MQ=255)
aaCGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTcc < 2:708192/139‑1 (MQ=255)
gTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCAt < 1:461114/139‑1 (MQ=255)
gTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCAt < 1:618562/139‑1 (MQ=255)
gCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATc < 1:650310/139‑1 (MQ=255)
gggAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCTCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTAt < 1:625352/139‑1 (MQ=255)
tcatcaGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCgg > 1:890450/1‑139 (MQ=255)
aTTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGa < 1:288099/139‑1 (MQ=255)
gATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCAt > 1:9817/1‑77 (MQ=255)
gATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCAt < 2:9817/77‑1 (MQ=255)
tAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGa < 1:361183/67‑1 (MQ=255)
tAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGa > 2:361183/1‑67 (MQ=255)
ggCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGa > 1:1019449/1‑111 (MQ=255)
ggCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGa < 2:1019449/111‑1 (MQ=255)
ggCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGc > 1:140064/1‑139 (MQ=255)
ccGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCg < 1:600555/93‑1 (MQ=255)
ccGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCg > 2:600555/1‑93 (MQ=255)
gAACGGTGGTAATCACTTCTTGGGGATATTTTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCAtt < 2:820912/120‑1 (MQ=255)
gAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCAtt > 1:820912/1‑120 (MQ=255)
cGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACtt < 2:140064/139‑1 (MQ=255)
tggtAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGc > 2:1101034/1‑139 (MQ=255)
ttcttGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCg < 2:62087/73‑1 (MQ=255)
ttcttGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCg > 1:62087/1‑73 (MQ=255)
ttcttGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGa > 2:531151/1‑89 (MQ=255)
ttcttGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGa < 1:531151/89‑1 (MQ=255)
ttcttGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCg > 2:924666/1‑139 (MQ=255)
ttcttGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCg > 1:28546/1‑139 (MQ=255)
cttGGGGATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTa > 2:716407/1‑139 (MQ=255)
ggATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc < 1:989973/139‑1 (MQ=255)
ggATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc < 2:28546/139‑1 (MQ=255)
ggATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc < 2:890450/139‑1 (MQ=255)
ggATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc < 1:470071/139‑1 (MQ=255)
ggATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGGTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc < 2:685744/139‑1 (MQ=255)
gATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATc < 2:323964/39‑1 (MQ=37)
gATATTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATc > 1:323964/1‑39 (MQ=37)
atatTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGt < 1:564371/139‑1 (MQ=255)
tatTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTg < 1:953746/109‑1 (MQ=255)
tatTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTg > 2:953746/1‑109 (MQ=255)
tatTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc < 1:125200/136‑1 (MQ=255)
tatTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc > 2:125200/1‑136 (MQ=255)
tatTGTGCCTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGtt > 1:340698/1‑139 (MQ=255)
ccTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCg < 2:170839/64‑1 (MQ=255)
ccTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCg > 1:170839/1‑64 (MQ=255)
ccTGAATTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCataa < 1:1101034/139‑1 (MQ=255)
|
TGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAA‑TTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAA > NC_000913/1189711‑1189978
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ 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
