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 |
|
A11 F1 I1 R1
|
21 |
62.2 |
4089897 |
94.3% |
3856772 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
1,329,516 |
C→T |
H33Y (CAC→TAC) |
topA → |
DNA topoisomerase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 1,329,516 | 0 | C | T | 98.2%
| 197.6
/ ‑6.1
| 56 | H33Y (CAC→TAC) | topA | DNA topoisomerase I |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (24/31); total (24/32) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
GAGTCCCCGGCAAAAGCCAAAACGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTCACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGACTCTACCTCCACCAAGACGGCTAAA > REL606/1329444‑1329590
|
gAGTCCCCGGCAAAAGCCAAAACGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTtaca > 2:830472/1‑76 (MQ=255)
gTCCCCGGCAAAAGCCAAAACGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATc > 2:1963624/1‑76 (MQ=255)
gTCCCCGGCAAAAGCCAAAACGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATc < 2:98451/76‑1 (MQ=255)
gTCCCCGGCAAAAGCCAAAACGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATc > 2:1325643/1‑76 (MQ=255)
gTCCCCGGCAAAAGCCAAAAAGATCAACAAGTATCTGGGTAGTGACTACGTGGCGAAAGCCAGCGTCGGTTACATc > 1:94810/1‑76 (MQ=255)
ccacGGCAAAAGCCAAAACGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCcg > 2:1866098/4‑76 (MQ=255)
cccGGCAAAAGCCAAAACGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCcgc > 2:1570162/1‑76 (MQ=255)
cAAAAGCCAAAACGAACAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGAttt > 2:552740/1‑76 (MQ=255)
aGCCAAAACGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCg < 1:234019/76‑1 (MQ=255)
aGCCAAAACGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCg < 2:1540340/76‑1 (MQ=255)
aGCCAAAACGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCg < 1:223995/76‑1 (MQ=255)
gCCAAAACGATCNACNAGTATCTGGGTAGTGACTNCGTGGTTAAATCCAGCGTCGGTTACATCCGCGATTTGCCGa < 1:1658681/76‑1 (MQ=255)
cAAAACGATCAACANGTATCTGGGTAGTGACTACGTGGTGAAGTCCAGCGTCGGTTACATTCGCGATTTGCCGAcc < 1:1742663/76‑1 (MQ=255)
cAAAACGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGAcc > 2:543230/1‑76 (MQ=255)
cAAAACGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGAcc > 2:618741/1‑76 (MQ=255)
cAAAACGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGAcc > 2:543245/1‑76 (MQ=255)
aaCGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGt > 2:1006827/1‑76 (MQ=255)
aCGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTg < 2:138929/76‑1 (MQ=255)
aTCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGCCCAGTGGCt > 1:1249740/1‑76 (MQ=255)
tCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTc < 2:654583/76‑1 (MQ=255)
tCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTc > 2:279163/1‑76 (MQ=255)
tCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTc < 2:149070/76‑1 (MQ=255)
tCAACAAGTATCAGAGTAGAGACTACGTGCTGAAATCCAGGGTCGGTTACCTCCGCGATTTGCCGACGAGTGGCTc < 2:40853/76‑1 (MQ=255)
aacaaGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAg < 1:1163646/76‑1 (MQ=255)
aaGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTg < 2:1489371/76‑1 (MQ=255)
aaGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTg < 2:1566992/76‑1 (MQ=255)
aaGTATCTGGGTAGTGACTACGTGGTAAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTg < 1:1097992/76‑1 (MQ=255)
aGTATCTGGGTAGTGCCTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGc < 1:1690715/76‑1 (MQ=255)
aGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGc > 2:1537292/1‑76 (MQ=255)
aGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGc > 2:836845/1‑76 (MQ=255)
tATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCa > 1:209949/1‑76 (MQ=255)
tCTGGGTATTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCaaa < 2:537538/76‑1 (MQ=255)
tGGGTAGTGACTGCGGGGTGAAATCCAGCATCGCTTACATCCGCGATCCGCCGACCAGTGGCTCAGCGGCCaaaaa > 1:1973366/1‑76 (MQ=255)
tGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCaaaaa < 2:1145308/76‑1 (MQ=255)
tGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCaaaaa > 2:1020233/1‑76 (MQ=255)
tGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCaaaaa > 2:1511924/1‑76 (MQ=255)
ggTAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAaga < 1:88786/76‑1 (MQ=255)
tAGTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGt < 2:989085/76‑1 (MQ=255)
aGTGACTACGTGGTGAAATCCAGCGTCGGTTACATGTGCGATTTGCTGACCAGTGGTTCAGTTCCCAAAAATAGTg > 2:43586/1‑76 (MQ=255)
gTGACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGc < 2:1698648/76‑1 (MQ=255)
gACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCg < 2:1694261/76‑1 (MQ=255)
gACTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTACCGACCCGTAGCTCAGCTGCCCAAANGAGTGCCg > 2:346684/1‑76 (MQ=255)
cTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGAc > 1:1161991/1‑76 (MQ=255)
cTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGAc < 2:1450753/76‑1 (MQ=255)
cTACGTGGTGAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGAc > 2:505359/1‑76 (MQ=255)
cTACGTGGTGAAATCCAGCGNCGGTTACATGCGCGANTTGCCGACCAGTGACACAGCTCCCAAAAAGAGTGCCGAc < 2:2033624/76‑1 (MQ=255)
tACGTGGGGATATCCAGCATCGGTTACATCCGCGATTTGNNGACCAGTNGCTCAGCTGCCAAAAAGAGTGCCGAct < 1:2004966/76‑1 (MQ=255)
gtggtgAAATTCAGCGTGGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAATGAGTGCCGACTCTa > 1:169311/1‑76 (MQ=255)
gtggtgAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGACTCTa > 1:826549/1‑76 (MQ=255)
tggtgAAATCCAGCNTCGGTTACATCCGCGATTTGCAGACCAGTGGCTCAGCTGCCAAACAGAGTGCAGACTCTAc > 1:503/1‑76 (MQ=255)
ggtgAAATCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGACTCTAcc < 2:488522/76‑1 (MQ=255)
aTCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGACTCTTCCTccacc < 1:1901608/76‑1 (MQ=255)
tCCAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGACTCTACCTccacca < 2:1071058/76‑1 (MQ=255)
cAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGACTCTACCTCCACCAAg < 1:1632004/76‑1 (MQ=255)
cAGCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGACTCTACCTCCACCAAg < 2:1827916/76‑1 (MQ=255)
gCGTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGACTCTACCTCCACCAAGAc < 1:1145407/76‑1 (MQ=255)
gTCGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGACTCTACCTCCACCAAGACgg < 1:1636863/76‑1 (MQ=255)
cGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGACTCTACCTCCACCAAGACGGCt > 1:529545/1‑76 (MQ=255)
cGGTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGACTCTACCTCCACCAAGACGGCt < 1:1943623/76‑1 (MQ=255)
ggTTACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGACTCTACCTCCACCAAGACGGCTa > 2:1212267/1‑76 (MQ=255)
tCACATCCGCGATTTGCCGACCAGTGGCGCAGCTGCCAAAAAGAGTGCCGACTCTACCTCCACCAAGACGGCTaaa < 1:776426/76‑1 (MQ=255)
|
GAGTCCCCGGCAAAAGCCAAAACGATCAACAAGTATCTGGGTAGTGACTACGTGGTGAAATCCAGCGTCGGTCACATCCGCGATTTGCCGACCAGTGGCTCAGCTGCCAAAAAGAGTGCCGACTCTACCTCCACCAAGACGGCTAAA > REL606/1329444‑1329590
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
