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 F169 I0 R1
|
132 |
34.5 |
794130 |
89.8% |
713128 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
1,298,108 |
T→A |
100% |
intergenic (+4/‑232) |
pnp → / → USA300HOU_1207 |
polyribonucleotide nucleotidyltransferase/beta‑lactamase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 1,298,108 | 0 | T | A | 100.0%
| 67.4
/ NA
| 24 | intergenic (+4/‑232) | pnp/USA300HOU_1207 | polyribonucleotide nucleotidyltransferase/beta‑lactamase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base A (8/16); total (8/16) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TTCACAAATTTCAAAAAATAGAATTGAAAAAGTGGAAGATGTATTAAAAATCGGTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGT‑CGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATTTAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAACGCTTTATTATTTTGTGTGCAACTGTTAATTATCCTGTA > CP000730/1297972‑1298244
|
ttCACAAATTTCAAAAAATAGAATTGAAAAAGTGGAAGATGTATTAAAAATCGGTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGT‑CGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATaaa < 1:350241/141‑1 (MQ=255)
cacaAATTTCAAAAAATAGAATTGAAAAAGTGGAAGATGTATTAAAAATCGGTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGT‑CGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGt > 2:187668/1‑141 (MQ=255)
aaaaTAGAATTGAAAAAGTGGAAGATGTATTAAAAATCGGTGACGCAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGT‑CGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACa > 1:208982/1‑141 (MQ=255)
aaaaTAGAATTGAAAAAGTGGAAGATGTATTAAAAATCGGTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGT‑CGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACa < 2:113378/141‑1 (MQ=255)
gAAAAAGTGGAAGATGTATTAAAAATCGGTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGT‑CGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCa > 1:244758/1‑141 (MQ=255)
ggAAGATGTATTAAAAATCGGGTACACAATTTAAGTTAAGATTACTGAAATTCCT‑GTCTCGTTACATGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGAttt < 1:188164/141‑1 (MQ=255)
tATTAAGAATCGGTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAGGGT‑CGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGc < 1:113925/141‑1 (MQ=255)
ggtggtacaATTGAAGTTAAGATTACTGAAATTGATAAACAAGGT‑CGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACg < 1:3830/135‑1 (MQ=255)
ggTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGT‑CGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATATAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACg < 1:265424/141‑1 (MQ=255)
tGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGT‑CGAGTAAATGCTTCCCATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGaa > 1:3581/1‑141 (MQ=255)
tGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGT‑CGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGaa < 2:16576/141‑1 (MQ=255)
gAAGTTAAGATTACGGAAATTGAAAAACAAGGT‑CGAGTAAATGCTTCACATCCGGTGTTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGtt < 1:187668/141‑1 (MQ=255)
aGTTAAGAATACTGAAATTGATAAACAAGGT‑CGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGtttt < 1:615/141‑1 (MQ=255)
gATTACTGAAATTGATAAACAAGGT‑CGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTTTTTTATTTTTTACGAAGTAACTCGTTTTGACttt > 2:136441/1‑141 (MQ=255)
tagaTTGATAACAAAGGG‑CGGGTAAATGCTACGCAGAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTAt < 2:20703/138‑1 (MQ=255)
gAAATTGATAAACAAGGT‑CGAGTAAATGCTTCACATAGCGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTAt < 2:239998/141‑1 (MQ=255)
aCAAGGT‑CTAGTAAATGCTTCACAAAGAGCATTAGAAGAAAAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTa < 1:19900/141‑1 (MQ=255)
aCAAGGT‑CGAGTAAAAGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTa < 2:66136/141‑1 (MQ=255)
ggT‑CGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAAc > 1:335557/1‑141 (MQ=255)
aGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAACGCttt < 1:48384/141‑1 (MQ=255)
gTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAACGCTtta < 2:3581/141‑1 (MQ=255)
cacaTAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAACGCTTTATTATTTtgtg < 1:346691/141‑1 (MQ=255)
agagCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGCATTTGTTGTATTGAACATTTTAAAACGCTTTATTATTCTGTGTGCaa > 2:350428/1‑141 (MQ=255)
tAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAACGCTTTATTATTTTGTGTGCAACTGTTaa > 2:368896/1‑141 (MQ=255)
atatatAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAACGCTTTATTATTTTGTGTGCAACTGTTAATTATCCtgtt > 2:228566/1‑140 (MQ=255)
|
TTCACAAATTTCAAAAAATAGAATTGAAAAAGTGGAAGATGTATTAAAAATCGGTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGT‑CGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATTTAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAACGCTTTATTATTTTGTGTGCAACTGTTAATTATCCTGTA > CP000730/1297972‑1298244
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
