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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,477,458 |
T→C |
21.3% |
V168V (GTT→GTC) |
pstA → |
phosphate transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,477,458 | 0 | T | C | 21.3%
| 118.1
/ 28.3
| 61 | V168V (GTT→GTC) | pstA | phosphate transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (19/29); new base C (7/6); total (26/35) |
| Fisher's exact test for biased strand distribution p-value = 5.28e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGGCGCAGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATGCGCTG > minE/2477388‑2477524
|
tggCGCAGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGtt < 1:732492/71‑1 (MQ=255)
ggCGCAGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGtt > 1:2546988/1‑70 (MQ=255)
gcgcAGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTAt < 1:3684212/71‑1 (MQ=255)
gcgcAGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTCAt > 1:3141507/1‑71 (MQ=255)
cgcAGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTAt < 1:1015911/70‑1 (MQ=255)
cgcAGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATc > 1:632880/1‑71 (MQ=255)
gcAGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATc > 1:652125/1‑70 (MQ=255)
aGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCg > 1:1500903/1‑70 (MQ=255)
gCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCg < 1:3505377/71‑1 (MQ=255)
cGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATg < 1:317038/70‑1 (MQ=255)
cGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTCATCCGCACCACCGAGAACATGc < 1:2868292/71‑1 (MQ=255)
gCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCt > 1:2605501/1‑70 (MQ=255)
gCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTCATCCGCACCACCGAGAACATGCTg < 1:1163959/71‑1 (MQ=255)
tGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGa > 1:753940/1‑70 (MQ=255)
ggcgggcgTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAAc < 1:2297666/71‑1 (MQ=255)
cgggcgTGATTGCCCTGGCGTTGTTGAAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTg > 1:875377/1‑71 (MQ=255)
gcgTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTCATCCGCACCACCGAGAACATGCTGAAACTGGTg > 1:1382246/1‑71 (MQ=255)
gTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTCATCCGCACCACCGAGAACATGCTGAAACTGGTGcc > 1:3255322/1‑71 (MQ=255)
tGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGtt > 1:247428/1‑35 (MQ=255)
tGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGcc > 1:260889/1‑70 (MQ=255)
aTTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGt < 1:1678593/70‑1 (MQ=255)
aTTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTa > 1:687274/1‑71 (MQ=255)
aTTGCCCTGGCGTTGTTGCAGGTGCCGATTGTCATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGt < 1:922357/70‑1 (MQ=255)
ttGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTAc < 1:2862616/71‑1 (MQ=255)
ttGCCCTGGCGTTGTTGCAGGTGCCGATTGTCATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTa > 1:3684545/1‑70 (MQ=255)
ccTGGCGTTGTTGCAGGTGCCGATTGTCATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGcc < 1:154843/71‑1 (MQ=255)
ccTGGCGTTGTTGCAGGTGCCGATTGTCATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGcc < 1:816007/71‑1 (MQ=255)
ccTGGCGTTGTTGCAGGTGCCGATTGTCATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGcc < 1:1374763/71‑1 (MQ=255)
ccTGGCGTTGTTGCAGGTGACGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGcc < 1:1360320/71‑1 (MQ=255)
cTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCt > 1:309857/1‑71 (MQ=255)
ggCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTAc < 1:1511447/64‑1 (MQ=255)
gCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCg > 1:1448594/1‑71 (MQ=255)
cGTTGTTGCAGGTGCCGATTGTCATCCGCACCACCGAGAACATGCTGAAACTgg > 1:1075149/1‑54 (MQ=255)
gttgttGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCg < 1:285763/58‑1 (MQ=255)
ttgttgCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGa < 1:2312677/71‑1 (MQ=255)
tgttgCAGGTGCCGATTGTCATCCGCACCACCGAGAACATGCTGAAAc > 1:2950975/1‑48 (MQ=255)
ttgCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGc < 1:798604/71‑1 (MQ=255)
gCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCgg > 1:3534877/1‑71 (MQ=255)
aGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGcc < 1:2923081/49‑1 (MQ=255)
aGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGcc < 1:1835729/49‑1 (MQ=255)
gTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCg < 1:2132570/59‑1 (MQ=255)
gTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCg < 1:3376881/59‑1 (MQ=255)
gTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTa < 1:960279/71‑1 (MQ=255)
gTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTa < 1:193074/71‑1 (MQ=255)
tGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCt < 1:1540317/55‑1 (MQ=255)
gCCGATTGTTATCCGCACCACCTAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGTCTTa < 1:3183667/69‑1 (MQ=255)
gCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGa > 1:3639433/1‑60 (MQ=255)
gCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGa > 1:3080509/1‑60 (MQ=255)
gCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATg > 1:1774199/1‑71 (MQ=255)
ccGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATgc < 1:3312568/71‑1 (MQ=255)
ccGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATg < 1:2222710/70‑1 (MQ=255)
cGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACa > 1:2208532/1‑48 (MQ=255)
cGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCg < 1:2887635/55‑1 (MQ=255)
cGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCg < 1:923391/55‑1 (MQ=255)
cGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCg < 1:1740054/55‑1 (MQ=255)
cGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATgcg < 1:2948601/71‑1 (MQ=255)
gATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGaa > 1:3075751/1‑58 (MQ=255)
gATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGaa > 1:474693/1‑58 (MQ=255)
gATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGa < 1:1300773/57‑1 (MQ=255)
aTTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGaa < 1:288020/57‑1 (MQ=255)
ttGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGcc < 1:1100086/48‑1 (MQ=255)
ttGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATGCGCTg > 1:36352/1‑71 (MQ=255)
ttGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATGCGCTg > 1:3042489/1‑71 (MQ=255)
ttGTCATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATgc > 1:3515704/1‑67 (MQ=255)
ttATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTa < 1:3608623/61‑1 (MQ=255)
tATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGa < 1:2743133/51‑1 (MQ=255)
|
TGGCGCAGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATGCGCTG > minE/2477388‑2477524
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
