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 |
|
A0 F0 I1 R1
|
715 |
38.4 |
1606192 |
96.6% |
1551581 |
120.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,475,562 |
(G)6→7 |
coding (126/1815 nt) |
yjgL → |
SopA‑central‑domain‑like hexapeptide repeat protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,475,556 | 1 | . | G | 95.8%
| 154.1
/ 0.2
| 48 | coding (120/1815 nt) | yjgL | SopA‑central‑domain‑like hexapeptide repeat protein |
| Reads supporting (aligned to +/- strand): ref base . (0/2); new base G (24/22); total (24/24) |
| Fisher's exact test for biased strand distribution p-value = 4.89e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.70e-01 |
CACTCAAGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑GG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATGGCTCAT > NC_000913/4475420‑4475688
|
cACTCAAGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑gg < 2:405451/139‑1 (MQ=255)
aCTCAAGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑gg‑g > 2:187735/1‑139 (MQ=255)
cTCAAGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑gg‑g‑g > 2:60916/1‑139 (MQ=255)
tCAAGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTGAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑gg‑g‑gg > 1:566307/1‑139 (MQ=255)
tCAAGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑gg‑g‑gg > 1:247646/1‑139 (MQ=255)
tCAAGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑gg‑g‑gg > 1:419841/1‑139 (MQ=255)
tCAAGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGAGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑gg‑g‑gg > 1:793292/1‑139 (MQ=255)
aaGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTGGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑gg‑g‑gggg > 1:528663/1‑138 (MQ=255)
aaGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑gg‑g‑gggg < 1:720887/139‑2 (MQ=255)
gTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAAC‑AAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGAt < 2:602375/139‑1 (MQ=255)
gTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAAc < 1:187735/139‑1 (MQ=255)
cATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAg < 2:793292/139‑1 (MQ=255)
aaaTTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAg > 2:411841/1‑118 (MQ=255)
aaaTTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAg < 1:411841/118‑1 (MQ=255)
aaaTTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTgg > 2:644738/1‑139 (MQ=255)
aaTTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGa > 1:117585/1‑139 (MQ=255)
attattCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAg < 1:446917/139‑1 (MQ=255)
aaCACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAat < 2:412177/114‑1 (MQ=255)
aaCACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAat > 1:412177/1‑114 (MQ=255)
aaCACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTag > 1:95185/1‑139 (MQ=255)
attacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAg > 1:210327/1‑102 (MQ=255)
attacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAg < 2:210327/102‑1 (MQ=255)
attacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGttt > 1:773505/1‑139 (MQ=255)
attacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGttt > 2:733505/1‑139 (MQ=255)
tacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGa > 2:356296/1‑94 (MQ=255)
tacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGa < 1:356296/94‑1 (MQ=255)
tacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGttttt > 2:221785/1‑139 (MQ=255)
taGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCaa > 1:317057/1‑139 (MQ=255)
aGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCaaa < 2:247646/139‑1 (MQ=255)
gCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAg > 1:406289/1‑139 (MQ=255)
ccGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGAAAAGa > 2:20293/1‑139 (MQ=255)
gACAATTTTACACCAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGa > 1:536519/1‑84 (MQ=255)
gACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑GGTG‑GGGCAGGa < 2:536519/84‑1 (MQ=255)
aCAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGatat < 2:566307/139‑1 (MQ=255)
ttttAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTAc < 2:317057/139‑1 (MQ=255)
tttAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTAcc < 1:644738/139‑1 (MQ=255)
aaaaGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTAt > 1:98180/1‑139 (MQ=255)
tACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACg < 2:528663/139‑1 (MQ=255)
ggCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCaaa < 2:43493/98‑1 (MQ=255)
ggCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCaaa > 1:43493/1‑98 (MQ=255)
ggCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCa > 1:169051/1‑139 (MQ=255)
ggCGTGTTGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATCTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCa > 2:513752/1‑139 (MQ=255)
ttGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGc > 2:433463/1‑129 (MQ=255)
ttGGAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGc < 1:433463/129‑1 (MQ=255)
ggAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCa > 2:482273/1‑88 (MQ=255)
ggAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCa < 1:482273/88‑1 (MQ=255)
ggAATGAATGATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCg < 2:169051/139‑1 (MQ=255)
aatgaatgATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCggg < 2:419841/139‑1 (MQ=255)
aatgaatgATTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCggg < 1:513752/139‑1 (MQ=255)
atgaatgaTTTTGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGt > 1:598490/1‑139 (MQ=255)
tttGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATatg < 2:95185/139‑1 (MQ=255)
tGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGc < 2:554974/124‑1 (MQ=255)
tGCCCGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGc > 1:554974/1‑124 (MQ=255)
cccGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCGCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATgg > 1:195890/1‑139 (MQ=255)
cccGTATTGCC‑GG‑GAGGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGACTTTTTGGCAAAGATATTTACCCTGCGTTATGTGGCTTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATgg < 2:491123/139‑1 (MQ=255)
ccGTATTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATGGc < 2:792486/139‑1 (MQ=255)
aTTGCCGGG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATGGCTCat > 1:734956/1‑139 (MQ=255)
|
CACTCAAGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTTGGAATGAATGATTTTGCCCGTATTGCC‑GG‑G‑GGGCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATGGCTCAT > NC_000913/4475420‑4475688
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
