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 |
|
A65 F1 I1 R1
|
19 |
67.5 |
4307580 |
97.2% |
4186967 |
74.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,464,461 |
T→G |
Y31S (TAT→TCT) |
envZ ← |
osmolarity sensor protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,464,461 | 0 | T | G | 98.5%
| 258.1
/ NA
| 66 | Y31S (TAT→TCT) | envZ | osmolarity sensor protein |
| Reads supporting (aligned to +/- strand): ref base T (0/1); major base G (27/37); minor base C (0/1); total (27/39) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGCACTTCGTACGCGAGGACTTTATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTACGGGCAAATGAACTTCGTGGCGA > REL606/3464389‑3464534
|
cGCACTTCGTACGCGAGGACTTTATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGaa < 1:742478/75‑1 (MQ=255)
gCACTTCGTACGCGAGGACTTTATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAg < 2:1345413/75‑1 (MQ=255)
cACTTCGTACGCGAGGACTTTATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAgt > 1:428329/1‑75 (MQ=255)
aCTTCGTACGCGAGGACTTTATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAgtc > 1:1380891/1‑75 (MQ=255)
gTACGCGAGGACTTTATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCAc < 1:1236668/75‑1 (MQ=255)
tACGCGAGGACTTTATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTGGGCAcc > 1:860707/1‑75 (MQ=255)
tACGCGAGGACTTTATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCAcc > 2:1294138/1‑75 (MQ=255)
tACGCGAGGACTTTATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCAcc > 1:2114262/1‑75 (MQ=255)
aCGCGAGGACTTTATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCa > 1:1716855/1‑75 (MQ=255)
cgAGGACTTTATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGc < 1:1440943/75‑1 (MQ=255)
gAGGACTTTATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCt > 1:1426845/1‑75 (MQ=255)
gAGGACTTTATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCt < 1:1944956/75‑1 (MQ=255)
tttATTAAACTGCTGGCGGCTCAGCAAACTCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCggc > 1:1166013/1‑73 (MQ=255)
tttATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGaa > 1:1166009/1‑75 (MQ=255)
tttATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGaa > 2:1850491/1‑75 (MQ=255)
ttattaAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAAc < 2:1651309/75‑1 (MQ=255)
tattaAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACa < 1:1826102/75‑1 (MQ=255)
attaAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGACGTCGCCACCAGGCTGGCGAACAg > 2:1563241/1‑75 (MQ=255)
attaAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAg < 2:1102034/75‑1 (MQ=255)
ttaAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCAACATGATGGCGAAAAGc > 1:443531/1‑75 (MQ=255)
aaaCTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCaa < 1:206630/75‑1 (MQ=255)
aCTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAgg < 2:1590132/75‑1 (MQ=255)
tgctgGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCCGGCTGGGGAACAGCCAgggg > 1:584792/1‑73 (MQ=255)
tgctgGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAgggg > 2:209906/1‑73 (MQ=255)
tgctgGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTg < 2:1953865/75‑1 (MQ=255)
gctgGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGa < 1:1869823/75‑1 (MQ=255)
tgGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACg > 2:1834328/1‑75 (MQ=255)
tgGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAAAAGCAAGGGGACg > 2:862988/1‑75 (MQ=255)
tgGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCACGCTGGGGAAAAACAAGGTGACg > 2:1701718/1‑75 (MQ=255)
ggAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGcgacga > 2:1523134/1‑75 (MQ=255)
ggAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGa < 2:1348556/75‑1 (MQ=255)
gAGGCTCAGCAAAATCGCGAGGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGAt < 2:1837770/75‑1 (MQ=255)
gAGGCTAAGCAACATCGCGGCCCTCCGCAACCCGAGAGCAGTCGTCACCCGGCGGTCGAACGGCAAGGTGACGAt < 2:565741/75‑1 (MQ=255)
aGGCTCAGCAAAATCGCGAAGTTCAGCACCACCGGAGAAGTCGTCTCCAGGCTGGCGAACAGCAAGGTGACGATg < 2:1967288/75‑1 (MQ=255)
aGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATg < 2:1206198/75‑1 (MQ=255)
aGGCTCAGCAAAATCGCAAAGTTCAGCACCACCAGACAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATg < 2:839112/75‑1 (MQ=255)
ggCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGa < 2:2052304/75‑1 (MQ=255)
gCTCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAg < 2:1114987/75‑1 (MQ=255)
tCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCCAGGTGACGCTGAGCa > 2:1819069/1‑75 (MQ=255)
tCAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCa > 1:2093861/1‑75 (MQ=255)
tCAGCAAAAACGCGAAGTTCAGCCCCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCa < 2:1584585/75‑1 (MQ=255)
cAGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCCGGCGGAAAGCAAGGGGGCGATGAGCaa > 1:53414/1‑75 (MQ=255)
aGCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAAt < 2:814943/75‑1 (MQ=255)
gCAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCaaga < 2:95482/75‑3 (MQ=255)
cAAAATCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATaa < 2:1802547/75‑1 (MQ=255)
aaaTCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATaaag > 1:130425/1‑73 (MQ=255)
aaaTCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACg < 2:1866574/75‑1 (MQ=255)
aaaTCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACg < 2:709136/75‑1 (MQ=255)
aaaTCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACg < 2:1597903/75‑1 (MQ=255)
aaaTCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACg < 2:1032128/75‑1 (MQ=255)
aaTCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGt < 2:218198/75‑1 (MQ=255)
aTCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTa < 1:1910751/75‑1 (MQ=255)
aTCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTa < 1:1882570/75‑1 (MQ=255)
tCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTAc > 2:1827494/1‑75 (MQ=255)
tCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTAc < 2:1771157/75‑1 (MQ=255)
tCGCGAAGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTAc < 2:517311/75‑1 (MQ=255)
gcgAACTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAAAAGCAAGGTGACGATGAGCAATAACGTACgg < 2:1229504/75‑1 (MQ=255)
aaGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTACGGGCa > 2:552497/1‑75 (MQ=255)
aGTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAAAAAGAAGGGGACGGTGAGCAATAACGTACGGGCaa > 2:1730570/1‑75 (MQ=255)
gTTCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTACGGGCaaa < 1:1064665/75‑1 (MQ=255)
tccAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTACGGGCAAAt < 2:329574/73‑1 (MQ=255)
tCAGCACCACCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGAGACGATGAGCAATAACGTACGGGCAAATg > 2:55726/1‑75 (MQ=255)
caccacCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTACGGGCAAATGAACt < 1:2127935/75‑1 (MQ=255)
caccacCAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTACGGGCAAATGAACt < 2:1379177/75‑1 (MQ=255)
accaccAGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTACGGGCAAATGAACtt > 2:242343/1‑75 (MQ=255)
accaGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTACGGGCAAATGAACTTCGt < 2:432631/75‑1 (MQ=255)
accaGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTACGGGCAAATGAACTTCGt < 2:186476/75‑1 (MQ=255)
ccaGAGAAGTCGTCACCAGGCTGGCGAACAGCAAGGGGACGATGAGCAATAACGTACGGGCAAATGAACTTCGTg > 1:1392011/1‑75 (MQ=255)
aTAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTACGGGCAAATGAACTTCGTGGCga < 2:538948/75‑1 (MQ=255)
|
CGCACTTCGTACGCGAGGACTTTATTAAACTGCTGGAGGCTCAGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTACGGGCAAATGAACTTCGTGGCGA > REL606/3464389‑3464534
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
