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 |
|
A54 F1 I1 R1
|
16 |
53.7 |
3449390 |
96.4% |
3325211 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
1,329,281 |
C→G |
intergenic (‑241/‑139) |
yciN ← / → topA |
hypothetical protein/DNA topoisomerase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 1,329,281 | 0 | C | G | 95.0%
| 245.5
/ 3.2
| 60 | intergenic (‑241/‑139) | yciN/topA | hypothetical protein/DNA topoisomerase I |
| Reads supporting (aligned to +/- strand): ref base C (0/3); new base G (32/25); total (32/28) |
| Fisher's exact test for biased strand distribution p-value = 9.57e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.39e-01 |
TAGATTTGCTTGACATTCGACCAAAATTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTCACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCATATCGGTAACT > REL606/1329209‑1329352
|
tAGATTTGCTTGACATTCGACCAAAATTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGAcc < 1:1576641/76‑1 (MQ=255)
gATTTGCTTGACATTCGACCAAAATTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTg > 1:1252601/1‑76 (MQ=255)
tGCTTGACATTCGACCAAAATTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAAtt > 1:1491919/1‑76 (MQ=255)
tGCTTGACATTCGACCAAAATTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAAtt > 1:795987/1‑76 (MQ=255)
tGCTTGACATTCGACCAAAATTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTCAAtt > 2:825339/1‑76 (MQ=255)
gCTTGACATTCGACCAAAATTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAAttt < 2:155425/76‑1 (MQ=255)
ttCGACCAAAATTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAAc < 1:481948/76‑1 (MQ=255)
tCGACCAAAATTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACa > 2:172688/1‑76 (MQ=255)
tCGACCAAAATTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACa < 2:125149/76‑1 (MQ=255)
tCGACCAAAATTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACa < 1:1426101/76‑1 (MQ=255)
tCGACCAAAATTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACa < 1:188863/76‑1 (MQ=255)
cGACCAAAATTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACag < 1:86380/76‑1 (MQ=255)
gACCAAAATTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACaga < 2:1040582/76‑1 (MQ=255)
aaaaTTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCa < 1:1027510/76‑1 (MQ=255)
aaaaTTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCa > 2:1060514/1‑76 (MQ=255)
aaaaTTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCa < 1:867888/76‑1 (MQ=255)
aaaTTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCAc < 1:1060186/76‑1 (MQ=255)
aTTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGa < 1:737247/76‑1 (MQ=255)
ttCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTCACCTGAATTTTCGTGAACAGAGTCACGAc < 1:909528/76‑1 (MQ=255)
tCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACa < 1:1559979/76‑1 (MQ=255)
gtGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGt > 2:223336/1‑76 (MQ=255)
tGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGtt > 2:1311058/1‑76 (MQ=255)
tGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGtt > 2:917017/1‑76 (MQ=255)
gCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTg > 1:900106/1‑76 (MQ=255)
ataGCGCCTGTCGGCAAAGACCTGTTAACTCAGAGACCTGAATTTTCGTGAACAGAGGCACGACAAGGGGTTGata > 2:1391138/1‑76 (MQ=255)
ataGCGCCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGAGAACAGAGTCACGACAAGGGGTTGata > 2:610244/1‑76 (MQ=255)
gcgcCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATcc < 2:227640/76‑1 (MQ=255)
cgcCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCg < 2:1093982/76‑1 (MQ=255)
cgcCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCg > 2:1165621/1‑76 (MQ=255)
gcCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGc < 2:1435587/76‑1 (MQ=255)
gcCTGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGc > 1:471925/1‑76 (MQ=255)
tGTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCaga > 1:299307/1‑76 (MQ=255)
tGTAGGCCAAGACCGGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCaga > 1:101968/1‑76 (MQ=255)
gTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCagag > 2:905197/1‑76 (MQ=255)
gTAGGCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCagag > 2:1670707/1‑76 (MQ=255)
tAGGCCAAGACCTGTTAACTCAGTGACCTGTATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCagaga < 1:162138/76‑1 (MQ=255)
gCCAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCg < 2:379588/76‑1 (MQ=255)
cAAGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAg > 2:1362654/1‑76 (MQ=255)
aaGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGt > 2:904969/1‑76 (MQ=255)
aaGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGt > 1:705033/1‑76 (MQ=255)
aaGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGt > 2:1545966/1‑76 (MQ=255)
aaGACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGt > 1:1541154/1‑76 (MQ=255)
gACCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTcc < 2:1283427/76‑1 (MQ=255)
gACCTGTTAACTCAGTCACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTcc < 2:218363/76‑1 (MQ=255)
aCCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCa < 2:652793/76‑1 (MQ=255)
aCCTGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCa > 2:1022277/1‑76 (MQ=255)
tGTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCatat > 1:189867/1‑76 (MQ=255)
tGTTAACTCAGTCACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCatat < 1:1626277/76‑1 (MQ=255)
ngTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCatat > 1:725883/2‑76 (MQ=255)
gTTAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCATATc > 1:1130467/1‑76 (MQ=255)
tAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCATATCgg > 2:1042733/1‑76 (MQ=255)
tAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCATATCgg < 1:1085855/76‑1 (MQ=255)
tAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCATATCgg < 2:753146/76‑1 (MQ=255)
tAACTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCATATCgg > 1:578281/1‑76 (MQ=255)
aaCTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCATATCGGt > 1:467384/1‑76 (MQ=255)
aCTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCATATCGGTa < 2:1531726/76‑1 (MQ=255)
cTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCATATCGGTaa < 2:169481/76‑1 (MQ=255)
cTCAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCATATCGGTaa < 2:541168/76‑1 (MQ=255)
cAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCATATCGGTAACt > 1:654268/1‑76 (MQ=255)
cAGTGACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCATATCGGTAACt > 2:982935/1‑76 (MQ=255)
|
TAGATTTGCTTGACATTCGACCAAAATTCCGTCGTGCTATAGCGCCTGTAGGCCAAGACCTGTTAACTCAGTCACCTGAATTTTCGTGAACAGAGTCACGACAAGGGGTTGATATCCGCAGAGAGCGAGTCCATATCGGTAACT > REL606/1329209‑1329352
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
