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 F28 I1 R1
|
252 |
48.5 |
1661298 |
98.8% |
1641362 |
138.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,185,875 |
(G)7→8 |
intergenic (‑79/‑42) |
rcnR ← / → rcnA |
DNA‑binding transcriptional repressor RcnR/Ni(2(+))/Co(2(+)) exporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,185,868 | 1 | . | G | 96.4%
| 90.3
/ ‑3.2
| 28 | intergenic (‑72/‑49) | rcnR/rcnA | DNA‑binding transcriptional repressor RcnR/Ni(2(+))/Co(2(+)) exporter |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (19/8); total (19/9) |
| Fisher's exact test for biased strand distribution p-value = 3.21e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGACCTGGCCCTGAATCTTACTGGCACGCGCTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAGCGCCATCTTACTTGGTGCGCTTCATGGCC > NC_000913/2185730‑2186001
|
cGACCTGGCCCTGAATCTTACTGGCACGCGCTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑‑g > 1:84328/1‑140 (MQ=255)
ccTGGCCCTGAATCTTACTGGCACGCGCTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑‑gggg < 2:552989/140‑1 (MQ=255)
cTGGCCCTGAATCTTACTGGCACGCGCTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑‑ggggg < 2:23936/140‑1 (MQ=255)
tGGCCCTGAATCTTACTGGCACGCGCTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑‑gggggg < 1:734966/140‑1 (MQ=255)
aaTCTTACTGGCACGCGCTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGa > 1:385155/1‑140 (MQ=255)
tACTGGCACGCGCTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAg > 1:477165/1‑140 (MQ=255)
gCACGCGCTTTAAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGc > 1:686550/1‑140 (MQ=255)
aCGCGCTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCg > 1:623405/1‑140 (MQ=255)
cgcTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAAt > 1:390018/1‑140 (MQ=255)
aggTATGAGACATGGTAACTCCTGGTTAACAAGAATATGAAAAATAATAGCGCTATTAATGTACTGGGGAGTGGTATCAGGTAATG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGAcc < 2:543832/138‑1 (MQ=255)
gaCATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGAcc < 2:424685/132‑1 (MQ=255)
gaCATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGAcc > 1:424685/1‑132 (MQ=255)
cATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACaa < 2:390018/140‑1 (MQ=255)
aTGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGAcc > 1:195737/1‑129 (MQ=255)
aTGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGAcc < 2:195737/129‑1 (MQ=255)
aTGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGa < 2:147842/131‑1 (MQ=255)
aTGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGa > 1:147842/1‑131 (MQ=255)
ggCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAActc > 2:88052/1‑140 (MQ=255)
ggCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAActc > 1:431862/1‑140 (MQ=255)
ggCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAAcct > 1:543832/1‑138 (MQ=255)
cTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTGGGGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCa > 1:504718/1‑140 (MQ=255)
tGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGc < 2:623405/140‑1 (MQ=255)
ggTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCa < 2:385155/140‑1 (MQ=255)
aCAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGaa > 1:144937/1‑140 (MQ=255)
aaGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAAc > 1:215889/1‑140 (MQ=255)
tatGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTg > 1:620077/1‑140 (MQ=255)
tatGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTgg < 2:84328/140‑1 (MQ=255)
tggAAAAATATTAGCATTATTAATCTCCTGGGGGTTGGTATCAGTTACT‑‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGt < 2:810251/138‑1 (MQ=255)
cTATTAATCTACTGGGGGGTAGTATCAGGTGCTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAgcg < 1:88052/140‑1 (MQ=255)
ttAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATccc > 1:133419/1‑132 (MQ=255)
ttAATCTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATccc < 2:133419/132‑1 (MQ=255)
cTACTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAGCGCCATCtct > 1:231355/1‑138 (MQ=255)
cTGGGGGGTAGTATCAGGTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAGCGCCATCTTACtt > 1:258675/1‑140 (MQ=255)
ggcagtaTCAGGAACTG‑GGGGGGGAGAAGAATCGGAGTGCCGAAGTAAGACTAAGAATTATTATCATGACCGAATTTAAAACTCTTCTTCAGCAAGGAAGCGGCTGGGTCTGCATCCCCAGCGCCATCTTACTTGGTgcc > 2:491867/4‑139 (MQ=255)
ggTACTG‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAGCGCCATCTTACTTGGTGCGCTTCATGGcc > 2:776445/1‑140 (MQ=255)
|
CGACCTGGCCCTGAATCTTACTGGCACGCGCTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑‑GGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAGCGCCATCTTACTTGGTGCGCTTCATGGCC > NC_000913/2185730‑2186001
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ 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
