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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,602,887 |
A→G |
45.2% |
T239T (ACT→ACC) |
yfeX ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,602,887 | 0 | A | G | 45.2%
| 7.0
/ 50.0
| 62 | T239T (ACT→ACC) | yfeX | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (28/6); new base G (18/10); total (46/16) |
| Fisher's exact test for biased strand distribution p-value = 1.47e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCG > minE/1602823‑1602952
|
gctgctCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGc > 1:3173321/1‑69 (MQ=255)
cAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTAc < 1:2729112/68‑1 (MQ=255)
cAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTAc > 1:1394353/1‑68 (MQ=255)
cAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTAc < 1:1517069/68‑1 (MQ=255)
aTGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCGGGct > 1:362646/1‑69 (MQ=255)
aTGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGct > 1:1155532/1‑69 (MQ=255)
aTGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGct > 1:1033607/1‑69 (MQ=255)
aTGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGct > 1:744452/1‑69 (MQ=255)
aTGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGct > 1:627063/1‑69 (MQ=255)
aTGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGct > 1:197181/1‑69 (MQ=255)
cgcgcgCAGTAGGCGCAGAAGTACAGTCCGTGAGTGCCACTGGCa < 1:509966/45‑1 (MQ=255)
cgcgcgCAGTAGGCGCAGAAGTACAGACCGTGATTGCCACTGGCa < 1:2672782/45‑1 (MQ=255)
cgcgcgCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCa < 1:1954916/45‑1 (MQ=255)
cgcgcgCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCa < 1:2813501/45‑1 (MQ=255)
cgcgcgCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCa < 1:3315556/45‑1 (MQ=255)
cgcgcgCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCa < 1:1148765/45‑1 (MQ=255)
cgcgcgCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCa < 1:1536687/45‑1 (MQ=255)
cgcgcgCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCa < 1:1482213/45‑1 (MQ=255)
cgcgcgCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCg > 1:604395/1‑68 (MQ=255)
cgcgcgCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCg > 1:608602/1‑68 (MQ=255)
cgcAGTAGGCGCAGAAGTACAGCCCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACaa > 1:2259127/1‑69 (MQ=255)
cgcAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACaa > 1:1051991/1‑69 (MQ=255)
cgcAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACaa > 1:2528255/1‑69 (MQ=255)
cgcAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACaa > 1:2524372/1‑69 (MQ=255)
cgcAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACaa > 1:2263172/1‑69 (MQ=255)
gcAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAAt < 1:3186270/69‑1 (MQ=255)
gcAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAAt < 1:2961535/69‑1 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGCCGAACAATCTTCAGccc > 1:569035/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:920619/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:3244002/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:3314284/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:962921/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:354087/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:362729/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:970749/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:2142427/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:1908525/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:1552398/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:2044281/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:2079806/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:213127/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:1415997/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:1215879/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:2518006/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:1182025/1‑69 (MQ=255)
tACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACaa > 1:240294/1‑52 (MQ=255)
tACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCa > 1:673127/1‑69 (MQ=255)
tACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCa > 1:643064/1‑69 (MQ=255)
tACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCa > 1:935524/1‑69 (MQ=255)
tACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCa > 1:2744181/1‑69 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCa > 1:1441776/1‑67 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCAtc > 1:1966076/1‑69 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCAt > 1:714254/1‑68 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCAt > 1:443523/1‑68 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCAt > 1:2052418/1‑68 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCAt > 1:2201295/1‑68 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCAt > 1:3120329/1‑68 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCAt > 1:2863794/1‑68 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:1734659/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:1633577/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:609600/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:2065976/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:3291963/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:713357/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:855566/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:2758014/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:119743/69‑1 (MQ=255)
gCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:2696782/69‑1 (MQ=255)
ccACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:760614/68‑1 (MQ=255)
ggCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAAcgcg < 1:2577051/69‑1 (MQ=255)
|
GCTGCTCAATGTTATGCAGACGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCG > minE/1602823‑1602952
|
| 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
