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 |
|
A7 F1 I2 R1
|
766 |
64.2 |
3232166 |
90.9% |
2938038 |
104.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,451,573 |
T→C |
G4G (GGA→GGG) |
yfcR ← |
putative fimbrial‑like adhesin protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,451,573 | 0 | T | C | 93.8%
| 104.4
/ 0.0
| 32 | coding (12/513 nt) | yfcR | putative fimbrial‑like adhesin protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base C (14/16); minor base . (1/1); total (15/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.61e-01 |
TTGAACAGGGTGGCGGAGCATCGACCAACACGCGCAGAATTAAATCCACGGGTTTACTACCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACTCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAGTCGTTGACGTAAGTCAGCACCGGTACGCTATCCATTTTCACA > NC_000913/2451440‑2451707
|
ttgaACAGGGTGGCGGAGCATCGACCAACACGCGCAGAATTAAATCCACGGTTTTACTACCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACcccccc < 1:818147/139‑1 (MQ=255)
gggTGGCGGAGCATCGACCAACACGCGCAGAATTAAATCCACGGGTTTACTACCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGtcatc < 1:268782/139‑1 (MQ=255)
ggCGGAGCATCGACCAACACGCGCAGAATTAAATCCACGGGTTTACTACCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAAC‑CCCCCCGTCATCAGCCt > 2:1131266/1‑139 (MQ=255)
cGGAGCATCGACCAACACGCGCAGAATTAAATCCACGGGTTTACTACCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCtt > 1:1169265/1‑139 (MQ=255)
cATCGACCAACACGCGCAGAATTAAATCCACGGGTTTACTACCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAAcccccc > 1:727889/1‑120 (MQ=255)
cATCGACCAACACGCGCAGAATTAAATCCACGGGTTTACTACCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAAcccccc < 2:727889/120‑1 (MQ=255)
tCGACCAACACGCGCAGAATTAAATCCACGGGTTTACTACCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGgct < 1:444251/139‑1 (MQ=255)
cAGAATTAAATCCACGGGTTTACTACCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCa > 2:762611/1‑139 (MQ=255)
aCGGGTTTACTACCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACcccccc < 1:620918/92‑1 (MQ=255)
aCGGGTTTACTACCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACcccccc > 2:620918/1‑92 (MQ=255)
aCGGGTTTACTACCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTgg < 2:626163/131‑1 (MQ=255)
aCGGGTTTACTACCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTgg > 1:626163/1‑131 (MQ=255)
tttACTACCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAAC‑CCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCAtt < 1:1131266/139‑1 (MQ=255)
tactacCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTg < 2:1169265/139‑1 (MQ=255)
actacCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGc < 1:762611/139‑1 (MQ=255)
tAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGgaaga > 1:1278460/1‑130 (MQ=255)
tAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGgaaga < 2:1278460/130‑1 (MQ=255)
cTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCg < 2:426205/139‑1 (MQ=255)
aGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGTCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTgcg > 2:1388614/1‑139 (MQ=255)
cTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTg > 1:619821/1‑68 (MQ=255)
cTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTg < 2:619821/68‑1 (MQ=255)
tGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCa < 2:818602/103‑1 (MQ=255)
tGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCa > 1:818602/1‑103 (MQ=255)
tGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAg > 2:951746/1‑139 (MQ=255)
tGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAg > 2:170948/1‑139 (MQ=255)
cagcCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAGTCGTTGACGt > 2:447084/1‑139 (MQ=255)
gcCCTGCGCCCACTACAAACTTTTGACTCATAACcccccc < 2:375026/40‑1 (MQ=255)
gcCCTGCGCCCACTACAAACTTTTGACTCATAACcccccc > 1:375026/1‑40 (MQ=255)
gcCCTGCGCCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAGTCGTTGACGTaa > 2:521632/1‑139 (MQ=255)
gcCCACTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAGTCGTTGACGTAAGTCAGCa < 1:1523505/139‑1 (MQ=255)
aCTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAGTCGTTGACGTAAGTCAGCACCgg > 2:727266/1‑139 (MQ=255)
aCTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAGTCGTTGACGTAAGTCAGCACCgg > 2:865050/1‑139 (MQ=255)
cTACAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAGTCGTTGACGTAAGTCAGCACCGGt < 1:447084/139‑1 (MQ=255)
cAAACTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCAACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAGTCGTTGACGTAAGTCAGCACCGGTACg < 1:951746/139‑1 (MQ=255)
aaaCTTTTGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAGTCGTTGACGTAAGTCAGCACCGGTACGc < 1:865050/139‑1 (MQ=255)
tGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAGTCGTTGACGTAAGTCAGCACCGGTACGCTATc < 2:1238767/136‑1 (MQ=255)
tGACTCATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAGTCGTTGACGTAAGTCAGCACCGGTACGCTATc > 1:1238767/1‑136 (MQ=255)
cATAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAGTCGTTGACGTAAGTCAGCACCGGTACGCTATCCATTTTca < 1:456950/139‑1 (MQ=255)
tAACCCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAGTCGTTGACGTAAGTCAGCACCGGTACGCTATCCATTTTcaca < 1:170948/139‑1 (MQ=255)
|
TTGAACAGGGTGGCGGAGCATCGACCAACACGCGCAGAATTAAATCCACGGGTTTACTACCAGCCATAGCAGATAAACTACAGACACTGCATACCAGCAGCCCTGCGCCCACTACAAACTTTTGACTCATAACTCCCCCCGTCATCAGCCTTTGCGGCTCTGCTCTTCATCCACCTGGCAGCTGTTGCCATTGCACTGGAAGAACAGCGGCATCCGTGCGCCAAAGTCGTTGACGTAAGTCAGCACCGGTACGCTATCCATTTTCACA > NC_000913/2451440‑2451707
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
