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 F58 I0 R1
|
54 |
56.9 |
1222162 |
95.8% |
1170831 |
141.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
1,231,470 |
A→C |
43.9% |
M39L (ATG→CTG) |
USA300HOU_1156 → |
possible PP2C protein phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 1,231,470 | 0 | A | C | 43.9%
| 15.7
/ 66.3
| 59 | M39L (ATG→CTG) | USA300HOU_1156 | possible PP2C protein phosphatase |
| Reads supporting (aligned to +/- strand): ref base A (18/15); new base C (16/10); total (34/25) |
| Fisher's exact test for biased strand distribution p-value = 6.08e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGAACAACATCAAGCTGAAAATTGGTTGCGTAATAATATAAAAGATATAAATTTTC > CP000730/1231332‑1231608
|
cAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATg > 2:538330/1‑141 (MQ=255)
tAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCCAACTAATCAACAACTTTTAGTTGTGAGTG‑ATGGTCTGGTTg > 2:419225/1‑141 (MQ=255)
aacgggcgtaattaCAAATGCTCGAAGTAGAATTGATGACGGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGcc < 1:288494/128‑1 (MQ=255)
aaaCGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGcc > 2:213863/1‑141 (MQ=255)
aaaCGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGcc < 2:257942/141‑1 (MQ=255)
aaCGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGTACTACATATGTATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCa < 2:208390/141‑1 (MQ=255)
aaCGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTAATGATACGGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCCAACTAATCAACACCTTTTAGTTCTGTGTG‑ATGGTCTGGGTgtcaa > 2:251376/1‑137 (MQ=255)
aCGAGGAAAAGAAAAATGCAAGAGGGACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCAt < 2:560114/141‑1 (MQ=255)
aaaaACAAATGCTAGAGGCACAATTTTTTACTGAGACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTGTTTATAATCAACCTAATCAACGACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAg < 1:564085/141‑1 (MQ=255)
aaGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACCACCTTTAATTACATTTA‑ATGGTATGGGTGGCCATAAAGCacg > 2:126067/1‑139 (MQ=255)
aGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGga > 1:489215/1‑141 (MQ=255)
aTGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑AGGGTATGGGTGGCCATAAAGCAGGAGAAGtt < 2:602739/141‑1 (MQ=255)
tAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGCAGTTGCaa > 1:11398/1‑141 (MQ=255)
tAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAAGCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCaa > 1:201616/1‑141 (MQ=255)
tAGAGGCACAATTTTTTACGGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCaa > 1:335907/1‑141 (MQ=255)
tAGAGGCACAATTTGTTACAGATACTGGACAACATAGAGATAAGCATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCaa > 1:335721/1‑141 (MQ=255)
agGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTa < 2:381393/141‑1 (MQ=255)
aTTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTgg > 1:508322/1‑140 (MQ=255)
tttACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACa > 1:540952/1‑141 (MQ=255)
tttACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTCTTGTGAGCATGG‑AGTGGCGGAAATAAACCAGGAGAAGTTGCAAGTAAATTTGTTACa > 1:138541/1‑141 (MQ=255)
tttACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTGTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGCGAAGTTGCAAGTAAATTTGTTACa > 1:387365/1‑141 (MQ=255)
ttACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAg < 1:343061/141‑1 (MQ=255)
aCTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGAt < 2:284696/141‑1 (MQ=255)
cTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCTAGTAAATTTCTTACAGATGAGTTGa < 1:307788/141‑1 (MQ=255)
cTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGa < 1:482276/141‑1 (MQ=255)
aacaTAGAGGTAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTGGTTCTGTGTG‑ATGGTATCGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATccg > 2:403740/1‑140 (MQ=255)
aacaTAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATccc < 2:219975/141‑1 (MQ=255)
aacaTAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATccc > 1:436638/1‑141 (MQ=255)
caTAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGt > 1:218369/1‑141 (MQ=255)
aTAGAGATAAGAATGAGGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGtt > 1:304925/1‑141 (MQ=255)
tAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGc < 1:213863/141‑1 (MQ=255)
tAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAGAtacgctggaggacg > 2:426243/1‑128 (MQ=255)
aGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCgg > 2:50281/1‑141 (MQ=255)
aGAATGAAGATGCGGGTGGTAGTTTTTATAATCAAACTAATCAACAACTTTTAGTTATGTGTG‑ATGGTCTGGGTCGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGCAGCgg < 1:450231/141‑1 (MQ=255)
aTGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGGGTTGAAATCCCGTTTTGACGCGGaaa > 1:260771/1‑141 (MQ=255)
aTGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGaaa > 1:504331/1‑141 (MQ=255)
tggagagtcGGGTTGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGaaaa < 2:471251/133‑1 (MQ=255)
gAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCACCAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAAt < 2:64568/141‑1 (MQ=255)
gATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCtt > 1:479998/1‑141 (MQ=255)
gATGCGGGTGATATTTTTTATAATCATACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTAGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAATTTTGTTACAGATGAGTTGAAGTCCGGTTTTGAAACGGAAAATcat > 2:374415/1‑139 (MQ=255)
aTGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTta < 2:99368/141‑1 (MQ=255)
gCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTtata > 2:244276/1‑141 (MQ=255)
gggTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGGTGAGTTGAAATCCCGTGTTGAAGCGGAAAATCTTATAGa > 2:420483/1‑141 (MQ=255)
ggtATTTTTTGTAATCCACCTAATCAACACCTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGaacaa < 2:201616/141‑1 (MQ=255)
gtATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGaacaac > 1:154749/1‑141 (MQ=255)
tttttATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGAACAACATCa < 1:280796/141‑1 (MQ=255)
ttATAATCAAACTAATCAACAACTTTTAGTTATGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGAACAACATCAAGc > 2:325933/1‑141 (MQ=255)
acaaccacaccaaTCAACAACTGTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAACCACCAGAAGCTCCAAGTAAATTTTTTCCAGATGAGTTGAAATCCCGCTTTGAATCGGAAAATCTTATAGAACAACATCCAGCtc < 2:185600/130‑2 (MQ=255)
taATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGAACAACATCAAGCTGa > 1:89913/1‑141 (MQ=255)
taATCAAACTAATCAAAAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGAACAACATCAAGCTGa < 2:129013/141‑1 (MQ=255)
cAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGAACAACATCAAGCTGAAAAt > 1:258064/1‑141 (MQ=255)
tAATCAACAACTTTTAGTTTCGTGTG‑ATGGTATCGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGAACAACATCAAGCTGAAAACTGGtt < 2:342559/141‑1 (MQ=255)
caacTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGAACAACATCAAGCTGAAAATTGGTTGCGtaat < 1:50281/141‑1 (MQ=255)
acTTTTAGTTCTGTGTG‑ATGGTCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGAACAACATCAAGCTGAAAATTGGTTGCGtaataa < 1:217259/141‑1 (MQ=255)
cTTTTAGATCTGTGTG‑ATGGCCTGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGAACAACATCAAGCTGAAAATTGGTTGCGTaataat > 1:385094/1‑141 (MQ=255)
tttAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGAACAACATCAAGCTGAAAATTGGTTGCGTAATAatat > 1:540520/1‑141 (MQ=255)
gtgtg‑ATGGTATGGGTGGCCATAAAGCAGGAGATGTTGCAAGTAAATTTGATACAGATGAGTTGAACTCCCGTTTTGAAGCGGAAAATCTTATAGAACAACATCAAGCTGAAAATTGGTTGCGTAATAATATAAAatatat < 1:416106/141‑1 (MQ=255)
g‑ATGGTCTGGGTGGCCATAAAGAAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGAACAACATCAAGCTGAAAATTGGTTGCGTAATAATATAAAAGATATAAAt > 2:492974/1‑141 (MQ=255)
gTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGAACAACATCAAGCTGAAAATTGGTTGCGTAATAATATAAAAGATAAAAATTTTc > 2:104620/1‑141 (MQ=255)
|
CAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTG‑ATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGTTTTGAAGCGGAAAATCTTATAGAACAACATCAAGCTGAAAATTGGTTGCGTAATAATATAAAAGATATAAATTTTC > CP000730/1231332‑1231608
|
| 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
