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 |
|
A114 F1 I1 R1
|
20 |
239.5 |
15463816 |
93.1% |
14396812 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,389,156 |
G→A |
V77I (GTA→ATA) |
gspG → |
pseudopilin, cryptic, general secretion pathway |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,389,156 | 0 | G | A | 98.4%
| 711.8
/ ‑0.4
| 187 | V77I (GTA→ATA) | gspG | pseudopilin, cryptic, general secretion pathway |
| Reads supporting (aligned to +/- strand): ref base G (3/0); new base A (95/89); total (98/89) |
| Fisher's exact test for biased strand distribution p-value = 2.48e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.45e-01 |
Only 100 of 239 total aligned reads displayed.
GGAAAACGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAGTAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTCTGCCTGCCG > REL606/3389083‑3389228
|
gAAAACGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTtaatag < 1:5985586/76‑1 (MQ=255)
aaaaCGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGa < 2:1452152/76‑1 (MQ=255)
aaaaCGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGa > 2:1462940/1‑76 (MQ=255)
aaaaCGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGa < 1:2461915/76‑1 (MQ=255)
aaaCGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATaaaa > 2:5694413/1‑76 (MQ=255)
aaaCGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGaa < 1:1303602/76‑1 (MQ=255)
aaaCGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGaa > 1:5244153/1‑76 (MQ=255)
aaCGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAg < 1:1138463/76‑1 (MQ=255)
aaCGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAg > 2:4029787/1‑76 (MQ=255)
aaCGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAg > 1:6800872/1‑76 (MQ=255)
aCGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAgc < 1:1586633/76‑1 (MQ=255)
cGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAgcg < 2:4538014/76‑1 (MQ=255)
cGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAgcg < 1:2219695/76‑1 (MQ=255)
cGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAgcg < 2:6370609/76‑1 (MQ=255)
cccTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGcc > 2:1568954/1‑76 (MQ=255)
ccTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCg > 1:4362207/1‑76 (MQ=255)
cTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGa < 2:322515/76‑1 (MQ=255)
atatGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACt > 1:2377055/1‑76 (MQ=255)
atatGTACAAACTCGACAATCATCACTACCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACt < 2:869327/76‑1 (MQ=255)
atatGTAAAACCTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACt < 2:2403197/76‑1 (MQ=255)
atGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGc > 1:5456447/1‑76 (MQ=255)
atGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGc < 1:1036118/76‑1 (MQ=255)
atGTACAAACTCGACAAGCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGc < 2:102764/76‑1 (MQ=255)
tGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGcc > 1:7309878/1‑76 (MQ=255)
tGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGcc < 1:1470997/76‑1 (MQ=255)
gTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAGTAGAAGCGGCGACACTGCCa > 2:6524725/1‑76 (MQ=255)
tACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCAc > 1:3367688/1‑76 (MQ=255)
tACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCAc < 1:7105176/76‑1 (MQ=255)
aCAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCAcc > 1:481513/1‑76 (MQ=255)
aCAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCAcc > 1:3196616/1‑76 (MQ=255)
aCAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCAcc < 1:7619448/76‑1 (MQ=255)
aaaCTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGc > 1:4925808/1‑76 (MQ=255)
aCTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTg < 1:3633438/76‑1 (MQ=255)
cGACAACCATCACTACCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGcc < 2:3022021/76‑1 (MQ=255)
gaaaaTCAGCACTATCCAACCACAAAGCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCg < 2:3735151/73‑1 (MQ=255)
aaaaTCATCCCTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGc < 2:3506926/74‑1 (MQ=255)
cAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCa > 2:2553664/1‑76 (MQ=255)
aaTCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCaa > 1:6901558/1‑76 (MQ=255)
aaTCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCaa > 1:2797513/1‑76 (MQ=255)
aaTCACCACTACCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCaa < 1:6473209/76‑1 (MQ=255)
atcatcACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCaaa > 2:3173946/1‑76 (MQ=255)
atcatcACTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCAGCaaa > 2:4623774/1‑76 (MQ=255)
atcaacACAACCCAACCCCAAAACGGGGCCTTAAATCCTTAATAGAAGCGCCAACACTGCCACCGCTGGCCGCaaa < 2:6268860/76‑1 (MQ=255)
catccCTACCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACt < 1:5270529/76‑1 (MQ=255)
catcaCTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACt < 1:6653266/76‑1 (MQ=255)
catcaCTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACt > 1:1423551/1‑76 (MQ=255)
catcaCTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACt < 1:2984328/76‑1 (MQ=255)
catcaCTACCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACt < 1:5512182/76‑1 (MQ=255)
atcaCTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACta > 2:2791870/1‑76 (MQ=255)
atcaCTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACta > 2:654822/1‑76 (MQ=255)
atcaCGACCCAACCACAAATCGGGGGCTTGACTCCTAAATAGAAGCGCCGACCCTGCCACCGCTGGCCGCAAACta < 2:1168101/76‑1 (MQ=255)
tcaCTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACtat > 2:7366203/1‑76 (MQ=255)
ccTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATaa < 1:1098654/75‑1 (MQ=255)
ccTACCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATaa < 1:3995016/75‑1 (MQ=255)
aCTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATaa > 1:4120488/1‑76 (MQ=255)
aCTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATaa > 1:2811107/1‑76 (MQ=255)
cTATCCAACCACAAATCAGGGGCTTGAATCCTTAATAGGAGGGCCGACACTGCCACCGCTGGCCGCAAAATATaaa > 2:4090551/1‑75 (MQ=255)
cTACCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAAc < 1:4597543/76‑1 (MQ=255)
acccAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACaa < 2:2949304/74‑1 (MQ=255)
aTCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACaa > 1:6836948/1‑76 (MQ=255)
tCCAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACaag > 2:4949255/1‑76 (MQ=255)
cccAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACaag < 1:6325989/75‑1 (MQ=255)
ccAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACaagg < 2:5673917/76‑1 (MQ=255)
ccAACCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACaagg > 1:2542351/1‑76 (MQ=255)
acccACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACaaggaa < 2:2033001/74‑1 (MQ=255)
aaCCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACaaggaa > 2:717819/1‑76 (MQ=255)
aaCCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACaaggaa < 1:6365195/76‑1 (MQ=255)
aaCCACAAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACaaggaa < 1:6622658/76‑1 (MQ=255)
aaCCACAAAGCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACaaggaa < 2:4728595/76‑1 (MQ=255)
aCCACAAATCAGGGGCTTGAATCCTTAAAAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACaaggaag < 2:831758/76‑1 (MQ=255)
acaAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGtt < 2:7061265/76‑1 (MQ=255)
caAATCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTta < 1:5550549/76‑1 (MQ=255)
aaaTCGGGGACTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTtat < 2:6156630/76‑1 (MQ=255)
aaaTCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTtat > 2:2740465/1‑76 (MQ=255)
aaaTCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTtat < 1:7572268/76‑1 (MQ=255)
aaTAAGGGCCTTAAATCTTAAATAAAAGCCCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTtata < 2:4309860/76‑1 (MQ=255)
aTCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTatat > 2:1891267/1‑76 (MQ=255)
taaGGGGGTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATc < 2:5930427/74‑1 (MQ=255)
tCAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATc < 1:6548431/76‑1 (MQ=255)
ccAGGGGCTGGAGTCCTGAATAGAAGCGCCGACACTGCCCCCGCTGGCCGCAAACTATAACAAGGAAGGTTATATc < 1:6418134/75‑1 (MQ=255)
cgggggCTGGAACCCTTAAAAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCa < 1:5011614/74‑1 (MQ=255)
cAGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCa > 1:1766709/1‑76 (MQ=255)
aGGGGCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCaa > 2:6007823/1‑76 (MQ=255)
aGGGGCTTGAATCCTTAATAGAAGAGCCGACACTGCCACCGCTGGTCGCAAACTTTAACAAGGAAGGCTATATCaa > 2:4373833/1‑76 (MQ=255)
gggCTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGc < 1:3553345/76‑1 (MQ=255)
cTTGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTc < 2:5540661/76‑1 (MQ=255)
ttaaaTCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTct < 1:6121971/73‑1 (MQ=255)
ttGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTct < 1:2746375/76‑1 (MQ=255)
tGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTctg > 2:6880093/1‑76 (MQ=255)
tGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTctg > 2:2483132/1‑76 (MQ=255)
tGAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTctg < 1:7356670/76‑1 (MQ=255)
gAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTctgc > 2:4848501/1‑76 (MQ=255)
gAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTctgc > 1:4451748/1‑76 (MQ=255)
gAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTctgc > 1:376822/1‑76 (MQ=255)
gAATCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTctgc > 1:5746495/1‑76 (MQ=255)
aTCCTTAATAGACGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTctgcct < 2:6585702/76‑1 (MQ=255)
aTCCTTAATAAAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTctgcct < 2:5282610/76‑1 (MQ=255)
tctttAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTctgcctg < 2:1276599/73‑1 (MQ=255)
tCCTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTctgcctg > 2:7520787/1‑76 (MQ=255)
cTTAATAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTCtgcctgcc > 2:5472134/1‑76 (MQ=255)
|
GGAAAACGCCCTTGATATGTACAAACTCGACAATCATCACTATCCAACCACAAATCAGGGGCTTGAATCCTTAGTAGAAGCGCCGACACTGCCACCGCTGGCCGCAAACTATAACAAGGAAGGTTATATCAAGCGTCTGCCTGCCG > REL606/3389083‑3389228
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
