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 |
|
A5 F178 I0 R1
|
39 |
50.1 |
1100758 |
94.0% |
1034712 |
140.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
804,673 |
A→T |
100% |
L135I (TTA→ATA) |
USA300HOU_0751 ← |
POT family proton (H+)‑dependent oligopeptide transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 804,673 | 0 | A | T | 100.0%
| 96.0
/ ‑6.5
| 34 | L135I (TTA→ATA) | USA300HOU_0751 | POT family proton (H+)‑dependent oligopeptide transporter |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base T (17/16); minor base G (0/1); total (17/17) |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AAGTGTTGCAAAATAATAGGTGATAATAATGCACCCATATTAACTGACATATAGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTAAACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCAAATGGTAAGCTTAAACAAATATGTCCGATAATAATAAAGACTGCACCTAATAAAGTAGCGCCTCTAGTGCCTGTAATT > CP000730/804537‑804803
|
aaGTGTTGCAAAATAATAGGTGATAATAACGCACCCATATTAACTAACATATAGAAAATAACAAAACCCGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATAcc < 2:373007/140‑1 (MQ=255)
ttttGCAAAATAATAGGTGATAATAATGCACCCATATTAACTGACATATAGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACAATATCGCAAAGGGTTGGCTTCATTATACCTGa < 1:404764/138‑1 (MQ=255)
taataGGTGATAATAATGCACCCATATTAACTGACATATAGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTAGACCTGAACCAATAatg < 1:307281/140‑1 (MQ=255)
ataGGTGATAATAATGCACCCATATTAACTGACATATAGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAatgat > 2:533935/1‑140 (MQ=255)
aGGTGATAATAATGCACCCATATTAACTGACATATAGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGAATATAAACGGCCAACGATAATAAAAAAGTTTGGCTAAAATATAACGCAACCAACAAtgatga > 1:118300/1‑140 (MQ=255)
aGGTGATAATAATGCACCCATATTAACTGACATATAGAAAATAACAAAACCTGCAACCATACGTCTATCATTTTCAGGATATAAACGGCCAACAATAATTGAAATGTTAGACCACAATATACCTGCACCaataatcctga > 1:462314/1‑135 (MQ=255)
gagATAATAATACACCCATATTAACTAACATATAAAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATAAAAACGGCCAACGATATTAGAAATGATTGGCTTCATTATACCTGAACCAATAATGATgaag < 1:75918/138‑1 (MQ=255)
tataataATGCACCCATATTAACTGACATATAGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATgaagaa < 1:312111/139‑1 (MQ=255)
gATAATAATGCACCCATATTAACTGACATATAGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATgaagaa < 1:454008/140‑1 (MQ=255)
ataatGCACCCATATTAACTGACATATAGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACAtt < 1:473856/140‑1 (MQ=255)
aatGCACCCATATTAACTGACATATAGAAAATAACAAAACTTGCATCCATACGTCTATCAGTTTCAGGATATAAACGGCCAACGAGATTTGAAATGTTTGGCTTCATTATATCTGAACCCATAATGATGAAGAACATTGa < 1:356214/140‑1 (MQ=255)
aatGCACCCATATTAACTGACATATAGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCACTAATGATgaagaaaacccc > 2:548269/1‑134 (MQ=255)
ctGCACCCATATTAACTGACATATAGAAAATAACAAAACGAGCATCCTTACGTCTATCATTTGCAGGATATAAACGGCCAACGAGATTTGAATTGTTTGGGTTCTTTATACCTGAACCAATAATGATGAAGAACATTGAt > 2:353165/2‑140 (MQ=255)
tGCACCCATATTAACTGACATATAGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACATTGAtg > 2:192486/1‑140 (MQ=255)
gtAACTGACCTATAGAAAATAACAAAGCCTGCATCCAGACGTGTATCATGTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGcc < 2:484144/139‑1 (MQ=255)
cTGACATATAGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGCACATTGATGTGAATAAGCCGAtt > 2:344213/1‑140 (MQ=255)
cTGACATATAGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGAAAGGCTTCATAATACCTGAAAAAATAAAGATAAAAAACAAAGACATGAATAAGCCGaaa > 1:410414/1‑138 (MQ=255)
atatAGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCCGTTAATGc > 2:259946/1‑140 (MQ=255)
aGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCaaaa > 2:479965/1‑139 (MQ=255)
aGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCAAAt < 1:501044/140‑1 (MQ=255)
aaaaTAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCAAATgg < 1:287645/140‑1 (MQ=255)
aaaTAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCTACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCCAATGGt < 2:304009/140‑1 (MQ=255)
aaCAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCAAATGGTAAGc > 2:53239/1‑140 (MQ=255)
aCAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCTAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCAAATGGTAAGCt < 1:76479/140‑1 (MQ=255)
cAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAAGGCAAATGGTAAGCtt > 2:203481/1‑140 (MQ=255)
aaaCCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCAAATGGTAAGCTTaa > 2:297374/1‑140 (MQ=255)
tATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCAAATGGTAAGCTTAAACAAATATGTCCGctaata > 2:19130/1‑140 (MQ=255)
aTCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCAAATGGTAAGCTTAAACAAATATGTCCGataataa < 1:430780/140‑1 (MQ=255)
ttCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCAAATGGTAAGCTTAAACAAATATGTCCGATAATAATAAAGa < 1:192486/140‑1 (MQ=255)
gggtgcaaaCGGCCATCGATATTTGAAGTGTTTGGCTTCATTATACCGGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCAAATGGTAAGCTTAAACGAATATGTCCGATAATAATAAAGACTGc < 2:133701/134‑1 (MQ=255)
aaCGATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGAGGGGGGACATTGATGTGAATAAGCCGATTAATGCAAATGGTAAGCTTAAACAAATATGTCCGATAATAATAAAGACTGCACCTAATAAAGTAg > 2:500655/1‑140 (MQ=255)
gATATTTGAAATGTTTGGCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCAAATGGTAAGCTTAAACAAATATGTCCGATAATAATAAAGACTGCACCTAATAAAGTAgcgc > 2:463254/1‑140 (MQ=255)
gCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCAAATGGTAAGCTTAAACAAATATGTCCGATAATAATAAAGACTGCCCCTAATAAAGTAGCGCCTCTAGTGCCTGTAAtc > 2:479736/1‑139 (MQ=255)
gCTTCATTATACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCAAATGGTAAGCTTAAACAAATATGTCCGATAATAATAAAGACTGCACCTAATAAAGTAGCGCCTCTAGTGCCTGTAAtt < 2:462314/140‑1 (MQ=255)
|
AAGTGTTGCAAAATAATAGGTGATAATAATGCACCCATATTAACTGACATATAGAAAATAACAAAACCTGCATCCATACGTCTATCATTTTCAGGATATAAACGGCCAACGATATTTGAAATGTTTGGCTTCATTAAACCTGAACCAATAATGATGAAGAACATTGATGTGAATAAGCCGATTAATGCAAATGGTAAGCTTAAACAAATATGTCCGATAATAATAAAGACTGCACCTAATAAAGTAGCGCCTCTAGTGCCTGTAATT > CP000730/804537‑804803
|
| 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
