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 |
|
A1 F56 I1 R1
|
11 |
18.4 |
473212 |
93.6% |
442926 |
129.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
USA300TCH1516_ALE |
1,744,607 |
T→C |
D22G (GAT→GGT) |
apt ← |
Adenine phosphoribosyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | USA300TCH1516_ALE | 1,744,607 | 0 | T | C | 100.0%
| 37.4
/ NA
| 15 | D22G (GAT→GGT) | apt | Adenine phosphoribosyltransferase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (9/6); total (9/6) |
AATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATGCTTCACCATTATCCATAATTGTAGTAATATCCTTGAAACTAACACCTGGTTTCGGCCAATCTTGAACTTCTGATACGTATTGCTTTAAATCCATTAATATTTCCTCCTAAATTGCTCACGACAATTGTGACTTTATCCAATTTTTT > USA300TCH1516_ALE/1744486‑1744723
|
aaTGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGGCTTTTGCGTATTCTACAATTTTAACTGTTGCATAGCCATATGCTTCACCATTATCCATAATTGTAGTAATACCCTTaaa > 2:178453/1‑129 (MQ=255)
tCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATGCTTCACCATTATCCATAATTGTAGTAATACCCTTGAAACTAACACCTGGTTTCGGCCAATc < 1:5393/129‑1 (MQ=255)
aCGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTTTTGCATAGCCATATGCTTCTCTATTATCCATAATTGTAGTAATACCCTTGAAACTAACACCTGGTTTCGGCCAATCTTGAACt < 1:93899/129‑1 (MQ=255)
tctcTGTCTTTTGCGTATTCTACAATTGTATCTGTTGCATAGCCATATGCTTCACCATTATCCATAATTGTAGTAATACCCTTGAAACTAACACCTGGTTTCGGCCAATCTTGAACTTCTGATACGTAt < 2:61013/129‑1 (MQ=255)
ttGCGTATTCTACAATTTTATCTGTTGCATAGCCATAAACTTCACCATTAACCATAATTGTAGTAATACCCTTGAAACTAACACCTGGTTTCGGCCAATCTTGAACTTCTGATACGTATTGCTTTAAAt > 1:10960/1‑129 (MQ=255)
ttATCTGTTGCATAGCCATATGCTTCACCATTATCCATAATTGTAGTAATACCCTTGAAACTAACACCTGGTTTCGGCCAATCTTGAACTTCTGATACGTATTGCTTTAAATCCATTAATATTtcctcc > 2:104991/1‑129 (MQ=255)
gCATAGCCATATGCTTCACCATTATCCATAATTGTAGTAATACCCTTGAAACTAACACCTGGTTTCGGCCAATCTTGAACTTCTTATACGTATTGCTTTAAATCCATTAATATTTCCTCCTAAATTGCt < 1:129366/129‑1 (MQ=255)
gCATAGCCATATGCTTCACCATTATCCATAATTGTAGTAATACCCTTGAAACTAACACCTGGTTTCGGCCAATCTTGAACTTCTGATACGTATTGCTTTAAATCCATTAATATTTCCTCCTAAATTGCt > 1:190000/1‑129 (MQ=255)
tAGCCATATGCTTCACCATTATCCATAATTGTAGTAATACCCTTGAAACTAACACCTGGTTTCGGCCAATCTTGAACTTCTGATACGTATTGCTTTAAATCCATTAATATTTCCACCTCAATTGCTCAc > 2:152587/1‑129 (MQ=255)
aTTATCCATAATTGTAGTACTACCCTTGAAACTAACAACAGGTTTCGGCCAATCTTGAACTTCTGATACGTATTGCTTTAAAACCATTAATATTTCCTCCTAAATTGCTCACGACAATTGTGACTTTaa > 1:112458/1‑128 (MQ=255)
aTTATCCATAATTGTAGTAATACCCTTGAAACTAACACCTGGTTTCAGCCAATCTTGAACTTCTGATACGTATTGCTTTAAATCCATTAATATTTCCTCCTAAATTGCTCACGACAATTGTGACTTTAt > 1:76432/1‑129 (MQ=255)
ttATCCATAATTGTAGTATTGCTCTTGAAAGTAACACCTGGTTTCGGCCAATCTTGAACTTCTGATACGTATTGCTTTAAATCCATTAATATTTCCTCCTAAATTGCTCACGACAATTGTGACTTTATc < 2:93004/129‑1 (MQ=255)
ccATAATTGTAGTAATACCCTTGAAACTAACACCTGGTTTCGACAAAACTTGAACTTCTGATACGTATTGCTTTAAATCCATTAATATTTCCTCCTAAATTGCTCACGACAATTGTGACTTTATCCAAt > 1:142768/1‑129 (MQ=255)
tAATTGTAGTAATACCCTTGAAACTAACACCTGGTTTCGACCAATCTTGAACTTCTAATACGAATTACTTTAAATCCATTAATATTTCCTCCTAAATTACTCACGACAATTGTGACTTTATCCAAtttt > 1:190038/1‑129 (MQ=255)
aTTGTAGTAATACCCTTGAAACTAACACCTGGTTTCGGCCAATCTTGAACTTCTGATACGTATTGCTTTAAATCCATTAATATTTCCTCCTAAATTGCTCACGACAATTGTGACTTTATCCAAtttttt < 1:153077/129‑1 (MQ=255)
|
AATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATGCTTCACCATTATCCATAATTGTAGTAATATCCTTGAAACTAACACCTGGTTTCGGCCAATCTTGAACTTCTGATACGTATTGCTTTAAATCCATTAATATTTCCTCCTAAATTGCTCACGACAATTGTGACTTTATCCAATTTTTT > USA300TCH1516_ALE/1744486‑1744723
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
