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 |
|
A73 F1 I1 R1
|
21 |
62.0 |
3993596 |
96.1% |
3837845 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,201,934 |
T→G |
Y209S (TAT→TCT) |
iclR ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,201,934 | 0 | T | G | 95.5%
| 262.5
/ 2.1
| 66 | Y209S (TAT→TCT) | iclR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base T (1/2); new base G (37/26); total (38/28) |
| Fisher's exact test for biased strand distribution p-value = 5.70e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.84e-01 |
CACGGTGCTCATCGAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAGG > REL606/4201863‑4202006
|
cACGGTGCTCATCGAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAAcc > 2:757536/1‑76 (MQ=255)
cGGTGCTCATCGAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAAcccc < 1:113680/76‑1 (MQ=255)
ggTGCTCATCGAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCg < 1:1962241/76‑1 (MQ=255)
gCTCATCGAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGttt > 1:411504/1‑76 (MQ=255)
gCTCATCGAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGttt > 1:1583699/1‑76 (MQ=255)
gCTCATCGAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGttt < 2:1964516/76‑1 (MQ=255)
cTCATCGAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTg > 2:327796/1‑76 (MQ=255)
tCATCGAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTTgc > 1:1397856/1‑76 (MQ=255)
tCATCGAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTgc > 1:978611/1‑76 (MQ=255)
cATCGAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTgcg > 2:461282/1‑76 (MQ=255)
cATCGAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTgcg > 2:1691960/1‑76 (MQ=255)
aTCGAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTgcgc > 2:1693232/1‑76 (MQ=255)
tCGAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGcgcg > 2:1676058/1‑76 (MQ=255)
gAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGtt > 1:434590/1‑76 (MQ=255)
aaaTACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTg > 1:13158/1‑76 (MQ=255)
aaaTACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTg < 2:389550/76‑1 (MQ=255)
aTACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTggg > 2:434526/1‑76 (MQ=255)
tcgcGCTGCAGGGCAGCGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCg < 2:1521128/73‑1 (MQ=255)
acacGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCg < 1:231175/76‑1 (MQ=255)
gCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGAt > 1:620724/1‑76 (MQ=255)
cTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGAtc > 1:718495/1‑76 (MQ=255)
tGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGAtct > 1:339016/1‑76 (MQ=255)
tGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGAtct > 2:742289/1‑76 (MQ=255)
gCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGCGAtctt > 1:532650/1‑76 (MQ=255)
gCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGAtctt > 2:192696/1‑76 (MQ=255)
gCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGAtctt > 1:665748/1‑76 (MQ=255)
cAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGAtcttc > 2:1519073/1‑76 (MQ=255)
aaGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGAtcttct < 2:650442/76‑1 (MQ=255)
aGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATcttctt < 2:852487/76‑1 (MQ=255)
aGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATcttctt > 2:194708/1‑76 (MQ=255)
aGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATcttctt < 2:1834499/76‑1 (MQ=255)
cAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTa < 2:49825/76‑1 (MQ=255)
aaCGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTaa < 1:1868445/76‑1 (MQ=255)
aaCGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTaa > 2:413530/1‑76 (MQ=255)
cGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAAt > 1:813960/1‑76 (MQ=255)
gTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATg > 2:410101/1‑76 (MQ=255)
tAGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGc > 2:895986/1‑76 (MQ=255)
aGCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGca > 1:1947902/1‑76 (MQ=255)
gCCCCAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGcac < 1:270423/76‑1 (MQ=255)
ccccAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGCGATCTTCTTTTAAATGcaca > 2:1536327/1‑76 (MQ=255)
ccAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAgg < 2:1814157/76‑1 (MQ=255)
ccAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAgg < 1:418428/76‑1 (MQ=255)
cAGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGga > 1:75940/1‑76 (MQ=255)
aGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGgag < 2:1505642/76‑1 (MQ=255)
aGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGgag > 2:858706/1‑76 (MQ=255)
aGCGCATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGgag < 1:1412143/76‑1 (MQ=255)
gcgcATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGgaga < 2:560641/76‑1 (MQ=255)
gcATGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGaca < 1:1829807/76‑1 (MQ=255)
aTGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACAcc < 2:270171/76‑1 (MQ=255)
aTGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACAcc > 1:1108081/1‑76 (MQ=255)
aTGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACAcc > 1:1838459/1‑76 (MQ=255)
tGTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCa > 2:1342420/1‑76 (MQ=255)
gTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAg > 1:506740/1‑76 (MQ=255)
gTTCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAg > 2:472849/1‑76 (MQ=255)
tCCTCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCg < 1:1587153/76‑1 (MQ=255)
tCATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTg < 2:1024511/76‑1 (MQ=255)
cATCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGc > 1:100571/1‑76 (MQ=255)
aTCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCg > 1:443806/1‑76 (MQ=255)
tCGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGt < 1:677390/76‑1 (MQ=255)
cGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTg > 2:1403463/1‑76 (MQ=255)
cGTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTg < 1:1068831/76‑1 (MQ=255)
gTCAAATGAATAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTgg < 1:355813/76‑1 (MQ=255)
gTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTgg < 2:459903/76‑1 (MQ=255)
gTCAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTgg < 1:1295501/76‑1 (MQ=255)
cAAATGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGt < 2:339016/76‑1 (MQ=255)
aaaTGAAGAACCCCGTTTGCGGGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGCCACCAGCGTTGCGGGGGtt > 2:497288/1‑75 (MQ=255)
aaTGAAGAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGtat < 1:854074/76‑1 (MQ=255)
gaagaaCCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAgg < 1:973255/76‑1 (MQ=255)
|
CACGGTGCTCATCGAAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAGG > REL606/4201863‑4202006
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
