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 |
|
A11 F28 I1 R1
|
132 |
43.0 |
1464274 |
99.1% |
1451095 |
138.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,134,944 |
A→G |
V72V (GTA→GTG) |
flgG → |
flagellar basal‑body rod protein FlgG |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,134,944 | 0 | A | G | 96.9%
| 101.7
/ NA
| 32 | V72V (GTA→GTG) | flgG | flagellar basal‑body rod protein FlgG |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (14/17); total (14/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTCAGTACTAACGGTTTTAAGCGTCAGCGCGCGGTGTTTGAAGATCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTACGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACCAACAACAGCAAAGATGTCGCGATTAAAGGGCAGGGCTTTTTCCAGGTGATGTTGCCAGATGGTTC > NC_000913/1134813‑1135060
|
gTCAGTACTAACGGTTTTAAGCGTCAGCGCGCGGTGTTTGAAGATCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGt < 2:693906/140‑1 (MQ=255)
aCGGTTTTAAGCGTCAGCGCGCGGTGTTTGAAGATCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGaa > 2:678059/1‑140 (MQ=255)
aCGGTTTTAAGCGTCAGCGCGCGGTGTTTGAAGATCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGaa > 1:343033/1‑140 (MQ=255)
ggTTTTAAGCGTCAGCGCGCGGTGTTTGAAGATCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACg < 2:58054/140‑1 (MQ=255)
aaGCGTCAGCGCGCGGTGTTTGAAGATCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTaca < 2:505328/140‑1 (MQ=255)
aaGCGTCAGCGCGCGGTGTTTGAAGATCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTaca < 1:52556/140‑1 (MQ=255)
aaGCGTCAGCGCGCGGTGTTTGAAGATCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTaca < 1:505826/140‑1 (MQ=255)
cgcgcgGTGTTTGAAGATCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAggg < 2:716392/140‑1 (MQ=255)
tttGAAGATCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTaca < 1:457651/122‑1 (MQ=255)
tttGAAGATCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTaca > 2:457651/1‑122 (MQ=255)
ttGAAGATCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCg < 1:105071/140‑1 (MQ=255)
aGATCTGCTTTCTCAATCCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCGCCTTACCCTCCGGATTACAAATCGGCACGGGGGTACGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGa < 2:608217/140‑1 (MQ=255)
tCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGc < 1:547591/134‑1 (MQ=255)
tCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGc > 2:547591/1‑134 (MQ=255)
tCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGa > 2:91510/1‑137 (MQ=255)
tCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGa < 1:91510/137‑1 (MQ=255)
tCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACca > 1:262732/1‑140 (MQ=255)
tGCTTTATCAAACCATTCGCCAGCCGGGGGCATAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGa < 1:268703/135‑1 (MQ=255)
tGCTTTATCAAACCATTCGCCAGCCGGGGGCATAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGa > 2:268703/1‑135 (MQ=255)
tGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACcaac > 1:386923/1‑140 (MQ=255)
tGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACcaac > 2:668187/1‑140 (MQ=255)
cTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACcaacaa > 1:400115/1‑140 (MQ=255)
tttATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACCaacaac < 2:343033/140‑1 (MQ=255)
ccATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACCAACAACAGCa < 1:119174/135‑1 (MQ=255)
ccATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACCAACAACAGCa > 2:119174/1‑135 (MQ=255)
cGCCAGCCGGGGGCACAGTCTTCCGAACAAACCGCCTTTCCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACCAACAACAGCAAAGATGTcgc < 1:536681/140‑1 (MQ=255)
gCCGGGGGCACAGTCGTCCGAACAAACCCCCTTGCCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGGCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACCAACAACAGCAAAGATGTCGCGATTa < 2:366943/140‑1 (MQ=255)
gTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACCAACAACAGCAAAGATGTCGCGATTAAAGGGCAGGGCt < 1:96571/140‑1 (MQ=255)
ttCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACCAACAACAGCAAAGATGTCGCGATTAAAGGGCAGGGCtttt > 2:608340/1‑140 (MQ=255)
tCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACCAACAACAGCAAAGATGTCGCGATTAAAGGGCAGGGCttttt > 1:653349/1‑140 (MQ=255)
cGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACCAACAACAGCAAAGATGTCGCGATTAAAGGGCAGGGCTTTTTcc < 2:400115/140‑1 (MQ=255)
ccaccTTACCCTCCGGATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACCAACAACAGCAAAGATGTCGCGATTAAAGGGCAGGGCTTTTTCCAGGTGATg < 1:668187/140‑1 (MQ=255)
ggATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACCAACAACAGCAAAGATGTCGCGATTAAAGGGCAGGGCTTTTTCCAGGTGATGTTGCCAGATGGTtc > 2:259611/1‑140 (MQ=255)
ggATTACAAATCGGCACGGGGGTGCGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACCAACAACAGCAAAGATGTCGCGATTAAAGGGCAGGGCTTTTTCCAGGTGATGTTGCCAGATGGTtc > 2:726722/1‑140 (MQ=255)
|
GTCAGTACTAACGGTTTTAAGCGTCAGCGCGCGGTGTTTGAAGATCTGCTTTATCAAACCATTCGCCAGCCGGGGGCACAGTCTTCCGAACAAACCACCTTACCCTCCGGATTACAAATCGGCACGGGGGTACGCCCGGTCGCCACTGAACGCTTACACAGCCAGGGAAACCTGTCGCAGACCAACAACAGCAAAGATGTCGCGATTAAAGGGCAGGGCTTTTTCCAGGTGATGTTGCCAGATGGTTC > NC_000913/1134813‑1135060
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
