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 |
|
A15 F177 I0 R1
|
51 |
26.9 |
575130 |
96.6% |
555575 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
1,274,212 |
A→T |
100% |
K205N (AAA→AAT) |
USA300HOU_1186 → |
CodY family transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 1,274,212 | 0 | A | T | 100.0%
| 56.9
/ NA
| 21 | K205N (AAA→AAT) | USA300HOU_1186 | CodY family transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (6/15); total (6/15) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AGAAAAAGAAGCGCGCGATAAAGCTGCTATTACAATGGCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATCACGTTCTTTAGGAATGAAAGGTACTTTCATTAAAGTTAAAAAAGAAAA > CP000730/1274083‑1274340
|
aGAAAAAGAAGCGCGCGATAAAGCTGCTATTACAATGGCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAATGTTGCAGATag < 1:259407/141‑1 (MQ=255)
aaaaGATGCGCGCGATAAAGCTGCTATTACAATGGCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAATGTTGCAGATAGAGt < 2:16015/141‑1 (MQ=255)
aagaagCGCGCGCTAAAGCTGCTATTACAATGGCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAATGTTGCAGATagcattg > 1:225091/1‑136 (MQ=255)
aagCGCGCGATAAAGCTGCTATTACAATGGCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCGTCAAATGTTGAAGATagcattagta > 2:12460/1‑133 (MQ=255)
gATAAAGCTGCTATTACAATGGCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAATGTTGCAGATAGAGTTGGTATTACTAGa < 1:231143/141‑1 (MQ=255)
gctATTACAATAGCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAATGTTGCAGATAGAGTTGGTATTACTAGATCTGTAAtt < 1:210284/141‑1 (MQ=255)
ttACAATGGCAATTAATTCATTATCTTATTCTGACAAAGAAGCGATGGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAATGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTaa > 2:188426/1‑141 (MQ=255)
tACAATGGCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAATGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTaaa < 1:109575/141‑1 (MQ=255)
ggCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAATGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACt < 1:91129/141‑1 (MQ=255)
aattaaatCCATAACTTACTCTGAAAAAGAAAAGATTGAACATATCTTTGAAGGGCTTGGCGGTACGGAAGGCCTATTAATCGCATCAAATGTTGCAGATAGAGTCGGTATTACTAGATCTGTAATTGTAAATGCACTACg < 1:12460/141‑1 (MQ=255)
cATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAATGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAg < 1:27527/141‑1 (MQ=255)
tCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGTCTATTAATCGCATCAAATGTTGCAGATAGAGTTGGTATTACTTGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGgt < 2:157374/141‑1 (MQ=255)
gAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAATGTTGCTGTAAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTa > 1:281642/1‑141 (MQ=255)
agCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAATGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATc < 1:188426/141‑1 (MQ=255)
cATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAATGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATCACGTTCTTTa > 1:249717/1‑141 (MQ=255)
tCTTTGAAGAACTTGGCGGTACGGAAGGCCTATGAATCGCATAAAATGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATCACGTTCTTTAGGaa < 2:101170/141‑1 (MQ=255)
gaaCTTGGCGCTAGGGAATGCCTATGAATCGCATCAAATGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATCACGTTCTTTAGGAATGAAAGGt < 2:269624/141‑1 (MQ=255)
tGGCGGTACGGGAGGCCTATTAATCGCATCAAATGTTGCAGAAAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATCACGTTCTTTAGGAATGAAAGGTACttt > 2:210567/1‑141 (MQ=255)
ggCGGTACGGAAGGCCTATTAATCGCATCAAATGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATCACGTTCTTTAGGAATGAAAGGTACTTTc < 2:260200/141‑1 (MQ=255)
aTTAAACGCATTAAATGGTACAAATAGACTTGGAATTACTAGATCTGGAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATCACGTTCTTTAGGAATGAAAGGTACTTTCATTAAAGTTAAAAAAGa < 2:232037/141‑1 (MQ=255)
aaTCGCATCAAATGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATCACGTTCTTTAGGAATGAAAGGTACTTTCATTAAAGTTAAAAAAGaaaa < 1:176913/141‑1 (MQ=255)
|
AGAAAAAGAAGCGCGCGATAAAGCTGCTATTACAATGGCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATCACGTTCTTTAGGAATGAAAGGTACTTTCATTAAAGTTAAAAAAGAAAA > CP000730/1274083‑1274340
|
| 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
