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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
975,257:1 |
+A |
68.4% |
coding (358/375 nt) |
ydeH ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 975,257 | 1 | . | A | 68.4%
| 145.1
/ 90.9
| 76 | coding (358/375 nt) | ydeH | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (10/14); new base A (27/25); total (37/39) |
| Fisher's exact test for biased strand distribution p-value = 4.65e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGAACCCGACGACCCGGCAATCCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGAAATGCGCGTCCT > minE/975188‑975319
|
aGAACCCGACGACCCGGCAATCCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑a < 1:835760/71‑1 (MQ=255)
cgacgaCCCGGCAATCCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑At < 1:4661400/66‑1 (MQ=255)
cgacgaCCCGGCAATCCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGtt < 1:4493219/71‑1 (MQ=255)
cgacgaCCCGGCAATCCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGtt < 1:143029/71‑1 (MQ=255)
gacgacCCGGCAATGCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGtt < 1:18858/71‑1 (MQ=255)
gacgacCCGGCAATCCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGt > 1:2392563/1‑70 (MQ=255)
gacgacCCGGCAATCCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGt > 1:3454128/1‑70 (MQ=255)
ggCAATCCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCg > 1:4437141/1‑69 (MQ=255)
ggCAATCCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCg > 1:744262/1‑69 (MQ=255)
gCAATCCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGtt < 1:656069/62‑1 (MQ=255)
aTCCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTa < 1:2866552/71‑1 (MQ=255)
aTCCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTaa < 1:892241/71‑1 (MQ=255)
tCCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGtt < 1:5506891/58‑1 (MQ=39)
tCCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTa > 1:268053/1‑70 (MQ=255)
cccGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTaa > 1:1746068/1‑70 (MQ=255)
ccGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTaa > 1:3034630/1‑58 (MQ=39)
ccGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTaa > 1:4182202/1‑58 (MQ=39)
ccGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTaa > 1:5108654/1‑58 (MQ=39)
ccGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTaaaa < 1:4072864/71‑1 (MQ=255)
ccGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTaaaa < 1:859248/71‑1 (MQ=255)
ccGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTaa > 1:2911408/1‑69 (MQ=255)
ccGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTa > 1:424484/1‑68 (MQ=255)
cGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAaaag < 1:19517/71‑1 (MQ=255)
cGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAaaaga < 1:1135870/71‑1 (MQ=255)
gTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAaaaga < 1:5491840/71‑1 (MQ=255)
gTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAaaag > 1:4250279/1‑70 (MQ=255)
aaaaCATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTaaa > 1:4204154/1‑65 (MQ=255)
aaaaCATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTaaa > 1:1498318/1‑65 (MQ=255)
aaaaCATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTaaa > 1:4288034/1‑65 (MQ=255)
aaaaCATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAaaagaaag > 1:3451618/1‑71 (MQ=255)
aaaaCATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAaaagaaag > 1:1421147/1‑71 (MQ=255)
aaaaCATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGTTaa > 1:131692/1‑52 (MQ=255)
aaaaCATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAaaagaaag > 1:1674959/1‑70 (MQ=255)
aaaaCATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAaaagaaag > 1:4873859/1‑70 (MQ=255)
aaaaCATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAaaagaaag > 1:3682130/1‑70 (MQ=255)
aaaaCATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAAAAGAAAGc < 1:3931975/71‑1 (MQ=255)
aaaaCATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAAAAGAAAGc < 1:5041616/71‑1 (MQ=255)
aCATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTaa < 1:4590777/50‑1 (MQ=255)
aCATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTaa < 1:5222628/50‑1 (MQ=255)
aTCCATATTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTaaaa < 1:2512629/61‑1 (MQ=255)
aTCCATATTGCTACGGATCGTCAACAAATAAATTTTGTAATCGGTTAATg > 1:855902/1‑50 (MQ=255)
tatTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTaa < 1:1691885/54‑1 (MQ=255)
tatTGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAaaaga < 1:4013558/57‑1 (MQ=255)
atTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGtt < 1:1273873/40‑1 (MQ=38)
atTGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAAc > 1:4678301/1‑64 (MQ=255)
ttGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTg > 1:2519605/1‑70 (MQ=255)
tGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTaa > 1:681331/1‑40 (MQ=38)
tGCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAAccc > 1:2118662/1‑64 (MQ=255)
gCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAaaaga > 1:1238827/1‑54 (MQ=255)
gCTACGGATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGa > 1:4566857/1‑70 (MQ=255)
gCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGaa < 1:1254714/70‑1 (MQ=255)
ggATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAaaag < 1:1478025/48‑1 (MQ=39)
gATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGa > 1:1663202/1‑64 (MQ=255)
gATCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGa > 1:2509741/1‑64 (MQ=255)
aTCGTCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGc < 1:2110897/51‑1 (MQ=255)
tCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGa < 1:896133/71‑1 (MQ=255)
tCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGa < 1:902803/71‑1 (MQ=255)
tCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGa < 1:4920244/71‑1 (MQ=255)
tCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGa < 1:32197/71‑1 (MQ=255)
tCAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGaaa > 1:2483408/1‑71 (MQ=255)
cAGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAaaaga < 1:400492/42‑1 (MQ=38)
aGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGaa < 1:5474625/68‑1 (MQ=255)
aGCAAATAAATTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGAAAt < 1:5386018/70‑1 (MQ=255)
aGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCg > 1:5281952/1‑65 (MQ=255)
cAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGaaa > 1:3044935/1‑56 (MQ=255)
cAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGAAATgcgc > 1:2662177/1‑71 (MQ=255)
aaataaatTTTGT‑ATCGGTTAATGCCGCAGTAaaaga < 1:5092264/37‑1 (MQ=255)
aataaatTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAAccc > 1:3222838/1‑46 (MQ=255)
aataaatTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTc < 1:155803/61‑1 (MQ=255)
aataaatTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGAAATGcgcg < 1:1227966/71‑1 (MQ=255)
ataaatTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGAAATgcgc < 1:1336422/69‑1 (MQ=255)
ataaatTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGAAATgcgc < 1:502446/69‑1 (MQ=255)
aatTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGaa > 1:220899/1‑50 (MQ=255)
aatTTTGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGAAATGCGCGTCCt > 1:4872964/1‑71 (MQ=255)
ttttGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGa < 1:2690228/57‑1 (MQ=255)
ttttGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGa < 1:5189778/57‑1 (MQ=255)
ttttGTAATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGAAATgc < 1:645381/62‑1 (MQ=255)
|
AGAACCCGACGACCCGGCAATCCCGTCAAAACATCCATATTGCTACGGATCGTCAGCAAATAAATTTTGT‑ATCGGTTAATGCCGCAGTAAAAGAAAGCAACCCCTCCTGAAAGGCGTCGAAATGCGCGTCCT > minE/975188‑975319
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
