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 |
|
A25 F36 I0 R2
|
1302 |
104.9 |
4551290 |
96.3% |
4382892 |
111.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
2,304,762 |
T→C |
11.4% |
intergenic (+369/+346) |
eco → / ← mqo |
ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,304,762 | 0 | T | C | 11.4%
| 97.4
/ 5.0
| 35 | intergenic (+369/+346) | eco/mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| Reads supporting (aligned to +/- strand): ref base T (15/16); new base C (2/2); total (17/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.10e-01 |
ACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGT > NC_000913/2304675‑2304858
|
aCATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACg < 3:1048139/148‑1 (MQ=39)
ctgataagacgcgccagcgtcgcatcaggcCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATa < 1:322631‑M2/39‑1 (MQ=255)
ctgataagacgcgccagcgtcgcatcaggcCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATa > 2:322631‑M2/31‑69 (MQ=255)
ctgataagacgcgccagcgtcgcatcaggcCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAgg < 1:1111835‑M2/42‑1 (MQ=255)
ctgataagacgcgccagcgtcgcatcaggcCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAgg > 2:1111835‑M2/31‑72 (MQ=255)
ataagacgcgccagcgtcgcatcaggcCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGt < 4:359513‑M2/80‑1 (MQ=255)
ataagacgcgccagcgtcgcatcaggcCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGt > 3:359513‑M2/28‑107 (MQ=255)
taagacgcgccagcgtcgcatcaggcCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCaa < 4:587065‑M2/67‑1 (MQ=255)
taagacgcgccagcgtcgcatcaggcCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCaa > 3:587065‑M2/27‑93 (MQ=255)
gacgcgccagcgtcgcatcaggcCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTgg > 4:804039‑M2/24‑59 (MQ=255)
gacgcgccagcgtcgcatcaggcCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTgg < 3:804039‑M2/36‑1 (MQ=255)
cgTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTg > 2:27506/1‑99 (MQ=255)
cgTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTg < 1:27506/99‑1 (MQ=255)
cgTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGt > 4:144013/1‑116 (MQ=255)
cgTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGt < 3:144013/116‑1 (MQ=39)
tCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGt > 2:83122/1‑114 (MQ=40)
tCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGt < 1:83122/114‑1 (MQ=40)
cTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGcc < 3:1028536/87‑1 (MQ=255)
cTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGcc > 4:1028536/1‑87 (MQ=255)
caggcCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGgcgta > 3:193607‑M2/6‑49 (MQ=255)
caggcCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGgcgta < 4:193607‑M2/46‑3 (MQ=255)
acacCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCtgtg > 3:152788/1‑124 (MQ=40)
acacCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGt > 3:88246/1‑128 (MQ=255)
acacCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGt < 4:88246/128‑1 (MQ=255)
acacCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCATACACCGCtgtg < 4:152788/124‑1 (MQ=255)
cGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCa < 3:37639/104‑1 (MQ=255)
cGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCa > 4:37639/1‑104 (MQ=255)
aGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCa < 3:1072914/52‑1 (MQ=255)
aGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCa > 4:1072914/1‑52 (MQ=255)
tGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCtg < 2:647219/108‑1 (MQ=255)
tGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCtg > 1:647219/1‑108 (MQ=255)
cACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTc > 3:249077/1‑83 (MQ=255)
cACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTc < 4:249077/83‑1 (MQ=255)
ccGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGt > 2:116724/1‑55 (MQ=255)
ccGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGt < 1:116724/55‑1 (MQ=255)
ttGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCa > 4:578746/1‑78 (MQ=255)
ttGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCa < 3:578746/78‑1 (MQ=255)
|
ACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGT > NC_000913/2304675‑2304858
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
