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 |
|
A19 F106 I0 R1
|
88 |
30.3 |
670850 |
93.2% |
625232 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
1,274,207 |
T→A |
100% |
S204T (TCA→ACA) |
USA300HOU_1186 → |
CodY family transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 1,274,207 | 0 | T | A | 100.0%
| 54.7
/ NA
| 19 | S204T (TCA→ACA) | USA300HOU_1186 | CodY family transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base A (10/9); total (10/9) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GCATAGTGAAGTAGAAAAAGAAGCGCGCGATAAAGCTGCTATTACAATGGCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATCACGTTCTTTAGGAATGAAAGGTACTTTCATTAAAGTTAAAAAAGAAAAATT > CP000730/1274071‑1274343
|
gCATAGTGAAGTAGAAAAAGAAGCGCGCGATAAAGCTGCTATTACAATGGCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCAACaaa > 2:162098/1‑141 (MQ=255)
aTAGTGAAGTAGAAAAAGAAGCGCGCGATAAAGCTGCTATTACAATGGCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCAACAAAAg > 2:319445/1‑141 (MQ=255)
tAGTGAAGTAGAAAAAGAAGCGCGCGATAAAGCTGCTATTACAATGGCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCAACAAAAGt > 1:9933/1‑141 (MQ=255)
aaGTAGAAAAAGAAGCGCGCGATAAAGCTGCTATTACAATGGCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCAACAAAAGTTGCAg < 2:301785/141‑1 (MQ=255)
gctATTACAATGGCAATTAATTCATTATCCTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCAACAAAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAAtt < 1:162098/141‑1 (MQ=255)
aaTGGCAATTAATTCATTATCTTATTCTGAGAAAGAAGCGATTGAACATATCTTAGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCGACAAAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGc < 2:245907/141‑1 (MQ=255)
cAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCAACAAAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTAc > 1:124087/1‑141 (MQ=255)
ttATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCAACAAAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAGTTGTAAATGCACTACGTGCATTAgga > 1:96294/1‑139 (MQ=255)
aaaaaGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTAATAATCGCAACAAAAGTTGCAGACAGCCACGCCACCGCTAGATCGTTAAGTGGAAATGCACTACGTAAATTAGAAAGTGCTgggctaa > 2:234974/1‑136 (MQ=255)
aaaGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCAACAAAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAAtt > 2:96941/1‑141 (MQ=255)
agCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCAACAAAAGTTGCCGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCCCTACGTACCTCTGAATGTTTTGGTGTAGTTGAATc > 2:318625/1‑141 (MQ=255)
agCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCAACAAAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATc < 2:108344/141‑1 (MQ=255)
gCGATTACACATATCTTTGAAGAACTTGGGTGTACGGAAGGCCTATTAATCGCAACAAAAGTTGCAGATAGAGTTGGTATAACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATCa < 2:35204/141‑1 (MQ=255)
cGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCAACAAAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATCAc < 1:266166/141‑1 (MQ=255)
atCTTTGAAGAACTTAGCGGTACGGAAGGCCTATTAATCGCAACAAAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTCCGTAAATTAGAAAGTGCTGGTGTACTTGCATCACGTTCTTTAGGa > 1:247075/1‑141 (MQ=255)
tGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCAACAAAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATCACGTTCTTTAGGAATGaa < 2:205134/141‑1 (MQ=255)
cTTGGAGGTACGGAAGGCCTATTAATCGCAACAAAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATCACGTTCTTTAGGAATGAAAgtacct < 1:69966/141‑6 (MQ=255)
aTTAATCGCAACAAAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTTCTGGTGTAATTGAATCACGTTCTTTAGGAATGAAAGGTACTTTCATTAAAGTTAAAAAAGa < 2:36848/141‑1 (MQ=255)
cGCAACACAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAGTTGAATCACGTTCTTTAGGAATGAAAGGTACTTTGATTAAAGTTAAAAAAGAAAAAtt > 1:210457/1‑141 (MQ=255)
|
GCATAGTGAAGTAGAAAAAGAAGCGCGCGATAAAGCTGCTATTACAATGGCAATTAATTCATTATCTTATTCTGAAAAAGAAGCGATTGAACATATCTTTGAAGAACTTGGCGGTACGGAAGGCCTATTAATCGCATCAAAAGTTGCAGATAGAGTTGGTATTACTAGATCTGTAATTGTAAATGCACTACGTAAATTAGAAAGTGCTGGTGTAATTGAATCACGTTCTTTAGGAATGAAAGGTACTTTCATTAAAGTTAAAAAAGAAAAATT > CP000730/1274071‑1274343
|
| 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
