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 |
3,145,707 |
C→T |
intergenic (+38/‑157) |
dnaG → / → rpoD |
DNA primase/RNA polymerase sigma factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,145,707 | 0 | C | T | 97.4%
| 286.7
/ ‑0.3
| 77 | intergenic (+38/‑157) | dnaG/rpoD | DNA primase/RNA polymerase sigma factor |
| Reads supporting (aligned to +/- strand): ref base C (1/1); new base T (53/22); total (54/23) |
| Fisher's exact test for biased strand distribution p-value = 5.11e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.17e-01 |
TCTGGACATTAAACCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACA > REL606/3145635‑3145777
|
tctGGACATTAAACCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGcctcc > 2:1980846/1‑75 (MQ=255)
tctGGACATTAAACCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGcctcc < 2:660934/75‑1 (MQ=255)
ctGGACATTAAACCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCg > 1:1365543/1‑75 (MQ=255)
ctGGACATTAAACCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCg > 1:416478/1‑75 (MQ=255)
ggACATTAAACCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGAc < 2:417143/75‑1 (MQ=255)
ggACATTAAACCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGAc < 1:724735/75‑1 (MQ=255)
gACATTAAACCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACa > 1:2040190/1‑75 (MQ=255)
aCATTAAACCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAg > 2:1777145/1‑75 (MQ=255)
aCATTAAACCAGGAGCTGGAGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAg < 2:1017862/75‑1 (MQ=255)
ttAAACCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCg > 2:1665025/1‑75 (MQ=255)
tAAACCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGc > 1:1052783/1‑75 (MQ=255)
tAAACCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGc > 2:1263043/1‑75 (MQ=255)
tAAACCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGc > 1:259068/1‑75 (MQ=255)
aaaCCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCa > 1:369058/1‑75 (MQ=255)
aaCCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCAc > 2:1980811/1‑75 (MQ=255)
aaCCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCAc > 2:530792/1‑75 (MQ=255)
ccAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTg > 1:1659182/1‑75 (MQ=255)
cAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTga > 2:535909/1‑75 (MQ=255)
cAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTga < 2:1219698/75‑1 (MQ=255)
gCTGGCGAAAAAGTGATTTAACGGCTTAAGGGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGc < 2:483172/75‑1 (MQ=255)
cTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCa < 2:589168/75‑1 (MQ=255)
cTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCa < 1:985845/75‑1 (MQ=255)
tGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAg > 1:1284277/1‑75 (MQ=255)
tGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAg < 1:701363/75‑1 (MQ=255)
ggCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGc > 2:1955407/1‑75 (MQ=255)
gCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCg < 1:268974/75‑1 (MQ=255)
gAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGc > 1:1503616/1‑75 (MQ=255)
aaaaGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCaa > 1:1893611/1‑75 (MQ=255)
aaaGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCaaa > 1:1971084/1‑75 (MQ=255)
aaaGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCaaa > 2:1330800/1‑75 (MQ=255)
aaGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAat > 2:744642/1‑75 (MQ=255)
aGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAata > 2:633451/1‑75 (MQ=255)
aGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAata > 2:20502/1‑75 (MQ=255)
tGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAatata < 1:1558239/75‑1 (MQ=255)
tGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAatata < 2:1271820/75‑1 (MQ=255)
gATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAatatat > 2:2113792/1‑75 (MQ=255)
gATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAatatat > 1:31312/1‑75 (MQ=255)
aTTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGGCCCCGACACCCGCACTGAGAGGCAGCGGACAAtatata > 1:495372/1‑75 (MQ=255)
tttAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATaa < 2:323424/75‑1 (MQ=255)
tttAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATaa > 1:225801/1‑75 (MQ=255)
tttAACGGCTTAAGGGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATaa < 2:90033/75‑1 (MQ=255)
ttAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGGAAATCTACAAg > 2:37842/1‑75 (MQ=255)
tagcGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGt < 2:239577/72‑1 (MQ=255)
tAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGt > 2:1508505/1‑75 (MQ=255)
aaCGGCTTAAGTGCCGAAGAGGGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTa < 2:1558158/75‑1 (MQ=255)
aaCGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTa > 2:1260173/1‑75 (MQ=255)
aaCGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTa > 2:2059840/1‑75 (MQ=255)
aaCGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTa > 1:832913/1‑75 (MQ=255)
ggCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGc > 2:683661/1‑75 (MQ=255)
ggCTTAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGc > 2:683641/1‑75 (MQ=255)
ttAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCt > 1:1736365/1‑75 (MQ=255)
tAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTc < 2:97232/75‑1 (MQ=255)
tAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTc > 1:1258916/1‑75 (MQ=255)
tAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTc > 1:1720873/1‑75 (MQ=255)
tAAGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTc > 1:647740/1‑75 (MQ=255)
aaGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCg > 2:1490819/1‑75 (MQ=255)
aGTGCCGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGt > 1:329064/1‑75 (MQ=255)
ccGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAAtt > 2:431390/1‑75 (MQ=255)
ccGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAAtt < 2:259068/75‑1 (MQ=255)
ccGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAAtt < 1:892719/75‑1 (MQ=255)
cGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTa > 1:542564/1‑75 (MQ=255)
cGAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTa < 1:2081346/75‑1 (MQ=255)
gAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTAt > 2:2489/1‑75 (MQ=255)
gAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTAt > 2:1348703/1‑75 (MQ=255)
gAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTAt > 2:1832696/1‑75 (MQ=255)
gAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTAt > 2:641708/1‑75 (MQ=255)
gAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTAt > 2:2069582/1‑75 (MQ=255)
gAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTAt < 1:1298350/75‑1 (MQ=255)
gAAGAGCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAACTACGCCCTCGTAATTAt > 2:645443/1‑75 (MQ=255)
gagCGATCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGt > 1:1396402/1‑75 (MQ=255)
aTCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCg > 2:1366780/1‑75 (MQ=255)
aTCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCg > 2:2096076/1‑75 (MQ=255)
aTCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCg > 1:1729205/1‑75 (MQ=255)
aTCGGGAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCg > 1:1729189/1‑75 (MQ=255)
gggAGGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTa < 2:912349/75‑1 (MQ=255)
gggAAGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTa > 1:811381/1‑75 (MQ=255)
aaGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAaac > 1:1336265/1‑75 (MQ=255)
aaGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAaac < 2:170556/75‑1 (MQ=255)
aaGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAaac > 2:1264033/1‑75 (MQ=255)
aGCCTCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAaaca < 2:85531/75‑1 (MQ=255)
|
TCTGGACATTAAACCAGGAGCTGGCGAAAAAGTGATTTAACGGCTTAAGTGCCGAAGAGCGATCGGGAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACA > REL606/3145635‑3145777
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ 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
