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 |
|
A22 F68 I1 R1
|
31 |
72.2 |
3191514 |
95.4% |
3044704 |
126.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
BS168_reference_genome |
2,387,885 |
(A)7→8 |
coding (704/735 nt) |
yphF ← |
putative lipoprotein of unknown function |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | BS168_reference_genome | 2,387,878 | 1 | . | A | 97.7%
| 143.1
/ ‑3.2
| 44 | coding (711/735 nt) | yphF | putative lipoprotein of unknown function |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base A (21/22); total (21/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.63e-01 |
TATGTGTATGACGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑AAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACAAAGGGGGTTTCATGCCAAATCATATCCTGGATTTCAGTCCCGGGTTTAAACGTTTTTTTGCTTTTTTTGAGGCAA > BS168_reference_genome/2387743‑2388010
|
tatGTGTATGACGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑aa > 1:209063/1‑138 (MQ=255)
tatGTGTATGACGTTGTCCTATTTGAATATGACATCTTTAGAAAAGTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑a < 4:98821/137‑1 (MQ=255)
gtgtATGACGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑aaa‑aa > 6:21047/1‑138 (MQ=255)
gtgtATGACGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑aaa‑aa > 3:120445/1‑138 (MQ=255)
tATGACGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑aaa‑aaaaa > 7:343790/1‑137 (MQ=255)
tATGACGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑aaa‑aaaaa > 5:184483/1‑137 (MQ=255)
tATGACGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATATGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑aaa‑aaaaa > 5:321358/1‑137 (MQ=255)
tGACGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑aaa‑aaaaacag > 3:392136/1‑135 (MQ=255)
tGACGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑aaa‑aaaaacag > 4:254975/1‑135 (MQ=255)
tGACGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑aaa‑aaaaacag > 5:374874/1‑135 (MQ=255)
tGACGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑aaa‑aaaaacag > 2:93051/1‑135 (MQ=255)
tGACGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑aaa‑aaaaacag > 6:82010/1‑135 (MQ=255)
tGACGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑aaa‑aaaaacag > 4:111279/1‑135 (MQ=255)
tGACGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTACATATCATTTTCT‑aaa‑aaaaacag > 3:290412/1‑135 (MQ=255)
tGACGTAGTCATATTTGAATATGACATCTTTAGAAAATTTATCATCATCAAACTAATAATTTAAAAAAACAATTCTCCATAGTTCTATGCAAGTGAGAAAGGATCATTCGTTTTTCATATCATTTTCT‑aaa‑aaaaaaag > 8:223716/1‑135 (MQ=255)
aCGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGt > 6:31477/1‑139 (MQ=255)
gTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTc < 1:93051/139‑1 (MQ=255)
tGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCt > 6:359641/1‑139 (MQ=255)
tGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCt > 3:333971/1‑139 (MQ=255)
tGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCt > 8:394747/1‑139 (MQ=255)
tGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCt > 2:3522/1‑139 (MQ=255)
tCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGt > 5:226557/1‑139 (MQ=255)
tCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGt > 2:160221/1‑139 (MQ=255)
tCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGt < 7:149675/139‑1 (MQ=255)
tCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTGCATATCATTTTCTAAAA‑AAAACAGGTTCCTGt < 4:290412/139‑1 (MQ=255)
tttGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGt < 5:287548/138‑1 (MQ=255)
tttGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGt > 1:256932/1‑138 (MQ=255)
gAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCAt < 6:384882/138‑1 (MQ=255)
aaTATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCAtt < 5:21047/138‑1 (MQ=255)
tGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCg > 7:6747/1‑139 (MQ=255)
aCATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGta > 3:279354/1‑139 (MQ=255)
aCATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGt < 2:209063/138‑1 (MQ=255)
cTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATAtt > 2:304645/1‑139 (MQ=255)
tAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATAtttt > 3:223522/1‑138 (MQ=255)
tttCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGaaaa > 4:353380/1‑139 (MQ=255)
ctcATCCTCAATCTATTAATATAACAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAAcg < 4:54147/138‑1 (MQ=255)
ctcATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAAcg < 1:154153/138‑1 (MQ=255)
aTCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAAcgcg < 1:160221/137‑1 (MQ=255)
aTCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAAcgcg < 5:82010/137‑1 (MQ=255)
ttAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATTTCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGGTTATTTTACAGAAAGCGCGGGGCCAACgggggg > 6:370607/1‑138 (MQ=255)
taAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGAGGGTACAAAGGGGGTTTCATg > 4:327495/1‑139 (MQ=255)
aaaaaaCCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACAAAGGGGGTTTCATGcc < 3:254975/139‑1 (MQ=255)
aaaaaaCCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACAAAGGGGGTTTCATGcc < 3:177254/139‑1 (MQ=255)
aaaaaaCCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACAAAGGGGGTTTCATGcc < 5:359641/139‑1 (MQ=255)
aaaaaaCCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACAAAGGGGGTTTCATGcc < 5:336747/139‑1 (MQ=255)
aaaaaaCCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACAAAGGGGGTTTCATGcc < 3:353380/139‑1 (MQ=255)
aaaaaaCCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACAAAGGGGGTTTCATGcc < 4:223522/139‑1 (MQ=255)
aaaaCCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTACTTTTTCATATCATTTTATAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGAGAAAGGGGGTTTCATGCCa > 6:87540/1‑138 (MQ=255)
ccTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACAAAGGGGGTTTCATGCCAAATCa > 2:340/1‑139 (MQ=255)
tGCAAGGGATAAAGGTTCATTCCTTTTTAATATCATTTTCTAAAA‑AAAACAGTTTCCTGTTTGTCATTTACAGTATATTTTACAGAAAACTCGGTGACAAAGTGCGTATCATCCCAAATCATATCCTGGATATCAGTca > 4:192645/1‑138 (MQ=255)
tGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACaa > 4:305986/1‑100 (MQ=255)
tGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACaa > 4:300417/1‑100 (MQ=255)
tGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACaa < 3:305986/100‑1 (MQ=255)
tGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACaa < 3:300417/100‑1 (MQ=255)
tGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑AAATAAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGCGGACAAAGGGGGTTTCATGCCAAATCATATCCTGGATTTCAGTcc < 6:321358/139‑1 (MQ=255)
aTTGCTTTTTCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACAAAGGGGGTTTCATGCCAAATCATATCCTGGATTTCAGTCCCGGGTTTAAACGttttt < 4:361940/138‑1 (MQ=255)
tttCATATCATTTTCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACAAAGGGGGTTTCATGCCAAATCATATCATGGATTTCAGTCCCGGGTTTAAACGTTTTTTTGCtttt > 5:200712/1‑139 (MQ=255)
ttttCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACAAAGGGGGTTTCATGCCAAATCATATCCTGGATTTCAGTCCCGGGTTTAAACGTTTTTTTGCTTTTTTTGAGGCaa < 4:279354/139‑1 (MQ=255)
ttttCTAAAA‑AAAACAGGTTCCTGTTTGTCATTTACCATATATTTTACAGAAAACGCGGGGACAAAGGGGGTTTCATGCCAAATCATATCCTGGATTTCAGTCCCGGGTTTAAACGTTTTTTTGCTTTTTTTGAGGCaa < 8:6204/139‑1 (MQ=255)
|
TATGTGTATGACGTTGTCCTATTTGAATATGACATCTTTAGAAAATTTCTCATCCTCAATCTATTAATATAAAAAAACCTTTCTCCCTATTTGTATGCAAGGGAGAAAGGTTCATTCCTTTTTCATATCATTTTCT‑AAA‑AAAACAGGTTCCTGTTTGTCATTTACCGTATATTTTACAGAAAACGCGGGGACAAAGGGGGTTTCATGCCAAATCATATCCTGGATTTCAGTCCCGGGTTTAAACGTTTTTTTGCTTTTTTTGAGGCAA > BS168_reference_genome/2387743‑2388010
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
