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 |
|
A57 F1 I1 R1
|
16 |
65.9 |
4148770 |
97.1% |
4028455 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,201,945 |
Δ1 bp |
coding (615/825 nt) |
iclR ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,201,945 | 0 | G | . | 96.4%
| 258.9
/ 4.8
| 55 | coding (615/825 nt) | iclR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base G (1/1); new base . (21/32); total (22/33) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.64e-01 |
AAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAGGCATGTAACCCTTT > REL606/4201877‑4202019
|
aaaaTACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGACTAACCCCGTTT‑CGCGTTTg > 2:772802/1‑76 (MQ=255)
aaaaTACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTg > 2:1806062/1‑76 (MQ=255)
aaaTACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTgg > 2:1820924/1‑76 (MQ=255)
aaTACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTggg < 2:1274565/76‑1 (MQ=255)
aTACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGc < 2:620398/76‑1 (MQ=255)
acacGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCga < 1:628559/76‑1 (MQ=255)
acGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCgaga > 2:1663850/1‑76 (MQ=255)
cGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGGTTGGGCGAGAt > 1:874355/1‑76 (MQ=255)
gCTGCAAGGCAACGTAGCCCCAGCGCATGTNCCTCATCGTCAAATGAATNACNCCGTTT‑CGCGTTTGNGCGAGAtc > 1:1911718/1‑76 (MQ=255)
tGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGAtctt < 2:291528/76‑1 (MQ=255)
gCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGAtcttc > 2:603842/1‑76 (MQ=255)
cAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGAtcttct < 1:651124/76‑1 (MQ=255)
aaGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATcttctt < 1:2012583/76‑1 (MQ=255)
aGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCttt > 2:1952748/1‑76 (MQ=255)
aGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCttt < 2:551027/76‑1 (MQ=255)
ggCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCtttt < 2:755249/76‑1 (MQ=255)
gCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTa < 1:1916432/76‑1 (MQ=255)
gCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTa < 1:742411/76‑1 (MQ=255)
cGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAAt < 2:1199419/76‑1 (MQ=255)
cGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATg < 1:278121/76‑1 (MQ=255)
tAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGca < 2:930548/76‑1 (MQ=255)
tAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGca > 1:95570/1‑76 (MQ=255)
gCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGcaca < 2:270643/76‑1 (MQ=255)
ccccAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGcacan < 1:216891/76‑2 (MQ=255)
ccccAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAg > 2:1652053/1‑76 (MQ=255)
cccAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAgg < 2:402059/76‑1 (MQ=255)
cccAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAgg < 2:1385163/76‑1 (MQ=255)
cAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAggcg > 1:900683/1‑74 (MQ=255)
cAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGgag < 1:978456/76‑1 (MQ=255)
cgcATGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGaca < 2:1397487/76‑1 (MQ=255)
aTGTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCa < 1:1370097/76‑1 (MQ=255)
gTTCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGc < 1:1730890/76‑1 (MQ=255)
ttCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCg < 2:1106039/76‑1 (MQ=255)
ttCCTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCg > 2:1737184/1‑76 (MQ=255)
ccTCATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGtt < 1:234599/76‑1 (MQ=255)
cATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCg < 2:246452/76‑1 (MQ=255)
cATCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCg > 2:703231/1‑76 (MQ=255)
aTCGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGt > 2:120182/1‑76 (MQ=255)
cGTCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTgg > 1:2021413/1‑76 (MQ=255)
tCAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGt < 2:865460/76‑1 (MQ=255)
cAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTgggca > 2:648531/1‑74 (MQ=255)
cAAATGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGta < 2:52485/76‑1 (MQ=255)
aaaTGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGtat < 2:1795650/76‑1 (MQ=255)
aaaTGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGtat < 2:1600932/76‑1 (MQ=255)
aaaTGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGtat < 2:1696265/76‑1 (MQ=255)
aaaTGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGgat > 1:1025908/1‑76 (MQ=255)
aaTGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGtata < 2:1902794/76‑1 (MQ=255)
aaTGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGtata > 2:508425/1‑76 (MQ=255)
tGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAgg > 1:287492/1‑76 (MQ=255)
tGAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAgg < 1:1592159/76‑1 (MQ=255)
gAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTTAATGCACAGGAGACACCAGCGTTGCGTGGGGATAGGc > 1:995369/1‑76 (MQ=255)
gAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAGGc > 1:1908088/1‑76 (MQ=255)
gAATAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAGGc > 1:161596/1‑76 (MQ=255)
aaaTAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAGGc < 1:867558/75‑1 (MQ=255)
tAACCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAGGCATg < 1:1637951/76‑1 (MQ=255)
aCCCCGTTT‑CGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAGGCATGTa < 2:968249/76‑1 (MQ=255)
tGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAGGCATGTAACCCttt > 1:1658305/1‑76 (MQ=255)
|
AAAATACACGCTGCAAGGCAACGTAGCCCCAGCGCATGTTCCTCATCGTCAAATGAATAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAGGCATGTAACCCTTT > REL606/4201877‑4202019
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ 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
