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 |
|
A1 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,794,102 |
G→A |
75.0% |
L398L (TTG→TTA) |
gabP → |
gamma‑aminobutyrate transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,794,102 | 0 | G | A | 75.0%
| 117.0
/ 44.7
| 68 | L398L (TTG→TTA) | gabP | gamma‑aminobutyrate transporter |
| Reads supporting (aligned to +/- strand): ref base G (6/11); new base A (25/26); total (31/37) |
| Fisher's exact test for biased strand distribution p-value = 4.05e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.03e-01 |
TCATCGCCGTTTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTACCTTTGTGTT > W3110S.gb/2794038‑2794161
|
tCATCGCCGTTTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGa < 1:1041419/68‑1 (MQ=255)
cATCGCCGTTTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGaa < 1:308779/68‑1 (MQ=255)
aTCGCCGTTTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCg < 1:193842/65‑1 (MQ=255)
gCCGTTTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTgg > 1:3631986/1‑69 (MQ=255)
gCCGTTTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTgg > 1:3336315/1‑69 (MQ=255)
gCCGTTTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTgg > 1:1484086/1‑69 (MQ=255)
cttttCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCt < 1:2875755/67‑1 (MQ=255)
cGTTTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCt < 1:369766/69‑1 (MQ=255)
cGTTTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCt < 1:2016547/69‑1 (MQ=255)
gTTTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCtt < 1:3512147/69‑1 (MQ=255)
gTTTCACAGTTGCGGATGCGCAAAATTCTGCGACCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCtt < 1:1915458/69‑1 (MQ=255)
ttCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTa < 1:1088019/69‑1 (MQ=255)
ttCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTa < 1:2766079/69‑1 (MQ=255)
ttCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTa < 1:2552407/69‑1 (MQ=255)
tCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTAt > 1:936607/1‑69 (MQ=255)
tCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTAt < 1:554232/69‑1 (MQ=255)
tCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTAt > 1:1109784/1‑69 (MQ=255)
acaGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTATc < 1:3239328/68‑1 (MQ=255)
gCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGc > 1:3371104/1‑56 (MQ=255)
gCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGc > 1:2427180/1‑56 (MQ=255)
gCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCtt < 1:3474199/58‑1 (MQ=255)
gCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCtt < 1:76967/58‑1 (MQ=255)
gCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCtt < 1:2688126/58‑1 (MQ=255)
gCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCt > 1:2198905/1‑69 (MQ=255)
gCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCt > 1:1529404/1‑69 (MQ=255)
ggATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTc < 1:1919147/68‑1 (MQ=255)
ggATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTc < 1:1579422/68‑1 (MQ=255)
ggATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTc < 1:1642780/68‑1 (MQ=255)
ggATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTc < 1:827689/68‑1 (MQ=255)
gATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCtt < 1:1194893/55‑1 (MQ=255)
tGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCtt < 1:3602813/53‑1 (MQ=255)
tGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCtt < 1:212039/53‑1 (MQ=255)
tGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCtt < 1:2643026/53‑1 (MQ=255)
gcgcAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTg > 1:2892376/1‑69 (MQ=255)
gcgcAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTg > 1:1884192/1‑69 (MQ=255)
gcgcAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGc < 1:380423/50‑1 (MQ=255)
gcgcAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGc < 1:2704685/50‑1 (MQ=255)
gcgcAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGc < 1:3435605/50‑1 (MQ=255)
gcgcAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGc < 1:1489496/50‑1 (MQ=255)
gcgcAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGc < 1:2875764/50‑1 (MQ=255)
gcgcAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTg > 1:1755225/1‑69 (MQ=255)
cgcAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTgg > 1:2885837/1‑60 (MQ=255)
cgcAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCt > 1:3491636/1‑62 (MQ=255)
gcAAAATTCTGCGAGCAGAAGGAAGCGAATTTCGCTTACGAATGTGGGtt < 1:3175823/50‑1 (MQ=255)
aTTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTc > 1:2625723/1‑69 (MQ=255)
aTTCTGCGAGCAGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTc > 1:1500585/1‑69 (MQ=255)
aGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCtt < 1:668672/69‑1 (MQ=255)
aGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCtt < 1:1170046/69‑1 (MQ=255)
cAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCAc < 1:2948160/49‑1 (MQ=255)
aGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTttat < 1:195315/69‑1 (MQ=255)
aGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTttat < 1:873559/69‑1 (MQ=255)
aGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTttat < 1:1983171/69‑1 (MQ=255)
aGAAGGAAGCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATAGGCTttat < 1:1254576/69‑1 (MQ=255)
ggaagCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTAcc > 1:1983045/1‑69 (MQ=255)
ggaagCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTAcc > 1:2134716/1‑69 (MQ=255)
ggaagCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTAcc > 1:3189648/1‑69 (MQ=255)
ggaagCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTAcc > 1:664326/1‑69 (MQ=255)
ggaagCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTAcc > 1:1156509/1‑69 (MQ=255)
ggaagCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTAcc > 1:1557874/1‑69 (MQ=255)
agCGAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGc > 1:1595936/1‑46 (MQ=255)
gAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTc > 1:512691/1‑36 (MQ=255)
gAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTc > 1:1191485/1‑36 (MQ=255)
gAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTc > 1:1895680/1‑36 (MQ=255)
gAAATTCGCTTACGAATGTGGCTTTATCCGTGGCTc > 1:852128/1‑36 (MQ=255)
aTTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTACCTTTGTGtt > 1:2351820/1‑68 (MQ=255)
aTTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTACCTTTGTGtt > 1:1537246/1‑68 (MQ=255)
aTTCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTACCTTTGTGtt > 1:2222416/1‑68 (MQ=255)
ttCGCTTACGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCt > 1:3176390/1‑51 (MQ=255)
|
TCATCGCCGTTTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTACCTTTGTGTT > W3110S.gb/2794038‑2794161
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
