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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
893,993 |
T→A |
36.5% |
S144S (TCA→TCT) |
sapB ← |
predicted antimicrobial peptide transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 893,993 | 0 | T | A | 36.5%
| 37.8
/ 42.4
| 52 | S144S (TCA→TCT) | sapB | predicted antimicrobial peptide transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (29/4); new base A (12/7); total (41/11) |
| Fisher's exact test for biased strand distribution p-value = 7.41e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.90e-01 |
GCCAGGCATCAATCAACGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGCAACCAACCTAGCGTGAGTGAACAAAACAGCGTCAACAGAAGCGCCAGCCAGAACA > minE/893929‑894057
|
gCCAGGCATCAATCAACGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGaaa > 1:1056882/1‑69 (MQ=255)
gCCAGGCATCAATCAACGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGaaa > 1:2639708/1‑69 (MQ=255)
gCCAGGCATCAATCAACGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGaaa > 1:1765922/1‑69 (MQ=255)
gCCAGGCATCAATCAACGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGaaa < 1:2009602/69‑1 (MQ=255)
gCCAGGCATCAATCAACGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGaaa < 1:3373560/69‑1 (MQ=255)
gCCAGGCATCAATCAACGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGaaa < 1:3141029/69‑1 (MQ=255)
gCCAGGCATCAATCAACGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGaaa < 1:426177/69‑1 (MQ=255)
gCCAGGCATCAATCAACGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGaaa < 1:140004/69‑1 (MQ=255)
gCCAGGCATCAATCAACGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGaaa < 1:1212219/69‑1 (MQ=255)
cAGGCATCAATCAACGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACg > 1:2435216/1‑69 (MQ=255)
aGGCATCAATCAACGCAAAACCGGTAATCGGTTTCACTTCTTAGAGCAAATCGAAACGCCCAGaaa < 1:1512895/66‑1 (MQ=255)
tcaatcaaCGGAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGcaa > 1:2001492/1‑68 (MQ=255)
tcaatcaaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGGAACGCCCTGAAACGGGcaa > 1:2536368/1‑68 (MQ=255)
tcaatcaaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGcaa > 1:3139734/1‑68 (MQ=255)
tcaatcaaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGcaa > 1:1156423/1‑68 (MQ=255)
tcaatcaaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGcaa > 1:2599396/1‑68 (MQ=255)
tcaatcaaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGcaa > 1:2682367/1‑68 (MQ=255)
tcaatcaaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGcaa > 1:1169620/1‑68 (MQ=255)
tcaatcaaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGcaa > 1:397689/1‑68 (MQ=255)
tcaatcaaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGcaa > 1:2944552/1‑68 (MQ=255)
tcaatcaaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGcaa > 1:2990936/1‑68 (MQ=255)
tcaatcaaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGcaa > 1:593209/1‑68 (MQ=255)
tcaatcaaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGcaa > 1:1085407/1‑68 (MQ=255)
tcaatcaaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGcaa > 1:1546313/1‑68 (MQ=255)
tcaatcaaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGcaa > 1:147319/1‑68 (MQ=255)
tcaatcaaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGcaa > 1:1263510/1‑68 (MQ=255)
aaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGCAACCAACCt > 1:1704022/1‑69 (MQ=255)
aaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGAAACg > 1:751245/1‑57 (MQ=255)
aaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGAAACg > 1:2949504/1‑57 (MQ=255)
aaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGAAACg > 1:3218815/1‑57 (MQ=255)
aaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGAAACg > 1:3337582/1‑57 (MQ=255)
aaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGAAACg > 1:2569411/1‑57 (MQ=255)
aaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGAAACg > 1:430284/1‑57 (MQ=255)
aaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGAAACg > 1:2048613/1‑57 (MQ=255)
aaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGAAACg > 1:1998914/1‑57 (MQ=255)
aaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGAAACg > 1:1566140/1‑57 (MQ=255)
aaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGAAACg > 1:1563862/1‑57 (MQ=255)
aaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCCCAGAAACg > 1:640432/1‑57 (MQ=255)
aaCGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAAATCGAAACGCACAGAAACg > 1:3377857/1‑57 (MQ=255)
cGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGCAACCAACCTAg > 1:294989/1‑69 (MQ=255)
cGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGCAACCAACCTAg > 1:3292564/1‑69 (MQ=255)
cGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGCAACCAACCTAg > 1:123739/1‑69 (MQ=255)
aaTCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAAC‑GGCAACCAACCTAGCGTGAGTGAACaa < 1:1019194/69‑1 (MQ=255)
aaTCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAAC‑GGCAACCAACCTAGCGTGAGTGAACaa < 1:519095/69‑1 (MQ=255)
aaTCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAAC‑GGCAACCAACCTAGCGTGAGTGAACaa < 1:1548042/69‑1 (MQ=255)
cGTAGAGCAGATCGAAACGCCCTGAAACGGGCAACCAACCTAGCGTGAGTGAACAAAACAGCGTCAAc > 1:1000152/1‑68 (MQ=255)
cGAAACGCCCTGAAACGGGCAACCAACCTAGCGTGAGTGAACAAAACAGCGTc < 1:2284879/53‑1 (MQ=255)
gCCCTGAAACGGGCAACCAACCTAGCGTGAGTGAACAAAACAGCGTCAACAGAAGCGCCAGCCAGAaca > 1:274569/1‑69 (MQ=255)
gCCCTGAAACGGGCAACCAACCTAGCGTGAGTGAACAAAACAGCGTCAACAGAAGCGCCAGCCAGAaca > 1:2737526/1‑69 (MQ=255)
gCCCTGAAACGGGCAACCAACCTAGCGTGAGTGAACAAAACAGCGTCAACAGAAGCGCCAGCCAGAaca > 1:2509614/1‑69 (MQ=255)
gCCCTGAAACGGGCAACCAACCTAGCGTGAGTGAACAAAACAGCGTCAACAGAAGCGCCAGCCAGAaca > 1:1816892/1‑69 (MQ=255)
gCCCTGAAACGGGCAACCAACCTAGCGTGAGTGAACAAAACAGCGTCAACAGAAGCGCCAGCCAGAaca > 1:1692744/1‑69 (MQ=255)
|
GCCAGGCATCAATCAACGCAAAACCGGTAATCGGTTTCACTTCGTAGAGCAGATCGAAACGCCCTGAAACGGGCAACCAACCTAGCGTGAGTGAACAAAACAGCGTCAACAGAAGCGCCAGCCAGAACA > minE/893929‑894057
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
