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 |
|
A13 F69 I0 R1
|
1426 |
148.0 |
5875178 |
97.4% |
5722423 |
123.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
3,350,682:1 |
+A |
11.7% |
noncoding (106/121 nt) |
arcZ → |
sRNA positive antisense regulator of rpoS; binds Hfq |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,350,682 | 1 | . | A | 11.7%
| 216.6
/ 29.2
| 60 | noncoding (106/121 nt) | arcZ | sRNA positive antisense regulator of rpoS; binds Hfq |
| Reads supporting (aligned to +/- strand): ref base . (28/25); new base A (3/4); total (31/29) |
| Fisher's exact test for biased strand distribution p-value = 7.02e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.71e-01 |
AACAAATCATTTAAGTTTTGCTATCTTAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCAGGCCGGAAGGTCAGGAGACTGAATTTGCTGA > NC_000913/3350544‑3350821
|
aaCAAATCATTTAAGTTTTGCTATCTTAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGG‑CTA‑GACCGGGGt > 3:40220/1‑146 (MQ=255)
aaCAAATCATTTAAGTTTTGCTATCTTAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGG‑CTA‑GACCGGGGt < 4:40220/146‑1 (MQ=255)
gTTTTGCTATCTTAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCttt > 4:697945/1‑149 (MQ=255)
ttttGCTATCTTAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCtttt < 1:839944/149‑1 (MQ=255)
tATCTTAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGG‑CTA‑GACCGGGGt < 1:16187/125‑1 (MQ=255)
tATCTTAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGG‑CTA‑GACCGGGGt > 2:16187/1‑125 (MQ=255)
tCTTAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCTGGGTCAt > 1:435805/1‑126 (MQ=255)
tCTTAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCAt < 2:435805/126‑1 (MQ=255)
ttAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACg > 2:373855/1‑149 (MQ=255)
cTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCtttt > 3:421265/1‑135 (MQ=255)
cTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCtttt < 4:421265/135‑1 (MQ=255)
aaaaCAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTa > 4:863508/1‑111 (MQ=255)
aaaaCAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTa < 3:863508/111‑1 (MQ=255)
aaaCAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTAcgtcg > 4:415028/1‑149 (MQ=255)
tGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTg < 3:327172/107‑1 (MQ=255)
tGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTg > 4:327172/1‑107 (MQ=255)
tgtgCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑c > 1:888482/1‑86 (MQ=255)
tgtgCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑c < 2:888482/86‑1 (MQ=255)
ttGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTcttctt < 3:697945/149‑1 (MQ=255)
ttGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGG‑CTA‑GACCGGGGt < 1:493203/85‑1 (MQ=255)
ttGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGG‑CTA‑GACCGGGGt > 2:493203/1‑85 (MQ=255)
cTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCtttt < 1:910584/97‑1 (MQ=255)
cTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCtttt > 2:910584/1‑97 (MQ=255)
tcatcaTAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCAtctc > 1:490432/1‑149 (MQ=255)
atcatAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCtt < 1:373855/149‑1 (MQ=255)
tcatAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACtt > 3:733617/1‑115 (MQ=255)
tcatAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACtt < 4:733617/115‑1 (MQ=255)
ataataATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTc < 1:443931/139‑1 (MQ=255)
ataataATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTc > 2:443931/1‑139 (MQ=255)
ataatTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATcc < 3:415028/149‑1 (MQ=255)
taatTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCa < 2:490432/149‑1 (MQ=255)
tttACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTc > 3:263406/1‑132 (MQ=255)
tttACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTc < 4:263406/132‑1 (MQ=255)
tttACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTc > 1:70737/1‑132 (MQ=255)
tttACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTc < 2:70737/132‑1 (MQ=255)
ccAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTg > 2:878243/1‑104 (MQ=255)
ccAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTg < 1:878243/104‑1 (MQ=255)
aaGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCttt < 4:1320849/84‑1 (MQ=255)
aaGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCttt > 3:1320849/1‑84 (MQ=255)
ccTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACtcttc < 2:994890/106‑1 (MQ=255)
ccTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACtcttc > 1:994890/1‑106 (MQ=255)
tGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTa > 4:375079/1‑85 (MQ=255)
tGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTa < 3:375079/85‑1 (MQ=255)
tGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCAtt < 4:367143/124‑1 (MQ=255)
tGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCAtt > 3:367143/1‑124 (MQ=255)
ttGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTccc > 4:296102/1‑137 (MQ=255)
ttGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTccc < 3:296102/137‑1 (MQ=255)
tATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTc < 4:275129/69‑1 (MQ=255)
tATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTc > 3:275129/1‑69 (MQ=255)
aCCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCAGGCCGGAAGGTCAGGAGACTGAATTTGCt > 2:1407773/1‑149 (MQ=255)
aCCCCGG‑CTAGG‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCAGGCCGGAAGGTCAGga > 3:839006/1‑136 (MQ=255)
aCCCCGG‑CTA‑GACCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCAGGCCGGAAGGTCAGga < 4:839006/136‑1 (MQ=255)
cccGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCa > 3:293663/1‑118 (MQ=255)
cccGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCa < 4:293663/118‑1 (MQ=255)
cccGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCAGGCCGGAAGGTCAGGAGACTGAATTTGc < 2:174412/146‑1 (MQ=255)
cccGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCAGGCCGGAAGGTCAGGAGACTGAATTTGc > 1:174412/1‑146 (MQ=255)
cccGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCAGGCCGGAAGGTCAGGAGACTGAATTTGCTGa > 3:521640/1‑149 (MQ=255)
cccGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCAGGCCGGAAGGTCAGGAGACTGAATTTGCTGa > 1:167909/1‑149 (MQ=255)
cGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTAt < 4:321611/109‑1 (MQ=255)
cGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTAt > 3:321611/1‑109 (MQ=255)
gTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTcttctt > 2:1397097/1‑77 (MQ=255)
gTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTcttctt < 1:1397097/77‑1 (MQ=255)
g‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCa < 2:1113075/109‑1 (MQ=255)
g‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCa > 1:1113075/1‑109 (MQ=255)
|
AACAAATCATTTAAGTTTTGCTATCTTAACTGCGTGCGGCCTGAAAAACAGTGCTGTGCCCTTGTAACTCATCATAATAATTTACGGCGCAGCCAAGATTTCCCTGGTGTTGGCGCAGTATTCGCGCACCCCGGTCTA‑G‑CCGGGGTCATTTTTTAGTGGCTTTTGCCACCCACGCTTTCAGCACTTCTACGTCGTGACGCCACTCTTCTTTCATCTCTTCAATCCATTCACCGACGTTATCTTCCCAGGCCGGAAGGTCAGGAGACTGAATTTGCTGA > NC_000913/3350544‑3350821
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
