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 F999 I1 R1
|
226 |
132.7 |
9745491 |
85.7% |
8351885 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,703,602 |
2 bp→GC |
intergenic (‑183/+124) |
dppB ← / ← dppA |
dipeptide transport system permease protein 1/dipeptide transport protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,703,602 | 0 | C | G | 98.8%
| 163.7
/ NA
| 87 | intergenic (‑183/+125) | dppB/dppA | dipeptide transport system permease protein 1/dipeptide transport protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base G (29/56); minor base T (0/1); total (30/57) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| * | NC_000913 | 3,703,603 | 0 | G | C | 100.0%
| 165.9
/ NA
| 87 | intergenic (‑184/+124) | dppB/dppA | dipeptide transport system permease protein 1/dipeptide transport protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (30/57); total (30/57) |
ACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGCGGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGTAGGCCTG > NC_000913/3703534‑3703669
||
aCGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAAc < 1:3444688/76‑1 (MQ=25)
aCGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAAc > 2:3298280/1‑76 (MQ=25)
gCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGc < 1:2138683/76‑1 (MQ=21)
gCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGc < 1:3741319/76‑1 (MQ=21)
gCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGc < 2:1120325/76‑1 (MQ=21)
cAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAAcccc > 2:4819572/1‑76 (MQ=21)
cAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGcc < 2:3044265/76‑1 (MQ=21)
agagGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACgact < 1:415236/76‑4 (MQ=21)
agagGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCt > 2:2968037/1‑76 (MQ=21)
agagGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCt > 2:2232413/1‑76 (MQ=255)
gagGCACAGCGCCGCCGGGGATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCtt < 2:47055/76‑1 (MQ=17)
gagGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCtt < 1:1907449/76‑1 (MQ=21)
agGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTa < 2:2965751/76‑1 (MQ=18)
ggCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTAt < 1:1566767/76‑1 (MQ=18)
cacaGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATcc < 2:4053338/76‑1 (MQ=18)
acaGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCg < 2:1681590/76‑1 (MQ=18)
caGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCgg < 2:947192/76‑1 (MQ=17)
caGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCgg < 1:676437/76‑1 (MQ=18)
gcgcCGCCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGcc < 2:4751643/76‑1 (MQ=14)
gcgcCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGcc < 1:2232414/76‑1 (MQ=17)
cgcCACCGTGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCt < 1:2706005/76‑1 (MQ=14)
cgcCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCt < 1:2676170/76‑1 (MQ=17)
gcCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTa > 2:1096258/1‑76 (MQ=17)
gcCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTa < 2:1127976/76‑1 (MQ=17)
ccACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTAc > 2:4792283/1‑76 (MQ=255)
ccGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACaaa > 2:3366282/1‑76 (MQ=14)
ccGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACaaa < 2:3701187/76‑1 (MQ=14)
cGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACaaaa > 1:1836441/1‑76 (MQ=14)
cGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACaaaa > 2:4045795/1‑76 (MQ=14)
gggTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAAt < 1:3991997/76‑1 (MQ=14)
gggTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAAt > 2:4616829/1‑76 (MQ=255)
gggTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAAt < 2:3413105/76‑1 (MQ=14)
ggTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATc < 1:1946869/76‑1 (MQ=14)
ggTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATc < 2:2048540/76‑1 (MQ=11)
gTATACAGATTGTTGACAAAGTGCGCTTTGTTTCTGCCGGATGCGGCTTTAACGCCTTATCCGGCCTACAAACTCg < 1:3683667/76‑1 (MQ=11)
gTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCg < 2:1068784/76‑1 (MQ=255)
gTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCg > 2:2534160/1‑76 (MQ=11)
tataCAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCgn < 1:2820944/76‑2 (MQ=11)
tataCAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGt < 2:3932755/76‑1 (MQ=11)
tataCAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGt < 1:2421194/76‑1 (MQ=11)
tataCAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGt < 1:2462752/76‑1 (MQ=11)
gataCAGATTGTGTACAAAGTGCTCTTTGTTGATGCAGTATTCGGCGTTAACGCCTTATCCGGCCTACAAAATCGt < 1:2461414/75‑1 (MQ=2)
ataCAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTg < 2:3325609/76‑1 (MQ=11)
aCAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCa > 1:892025/1‑76 (MQ=11)
aCAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCa > 1:3749958/1‑76 (MQ=11)
aCAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCa < 1:2535293/76‑1 (MQ=11)
aCAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCa < 1:1720434/76‑1 (MQ=1)
aTTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAAtt < 1:2086997/76‑1 (MQ=1)
tgttgACAAAGTGCGCTTTGTTTATGCCGGATGCGACGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCa > 1:912469/1‑76 (MQ=11)
aCAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACa < 1:2196805/76‑1 (MQ=1)
cAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACAt < 2:1293934/76‑1 (MQ=11)
aaaGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACAtt < 1:2231230/76‑1 (MQ=11)
aaaGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACAtt > 2:3324028/1‑76 (MQ=11)
aaaGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACAtt > 2:2291355/1‑76 (MQ=11)
aaaGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACAtt > 2:1587639/1‑76 (MQ=11)
aGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGc > 2:3808408/1‑76 (MQ=11)
gTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCa < 1:2055323/76‑1 (MQ=11)
tGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAg > 2:1867114/1‑76 (MQ=11)
tGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAg > 2:1888662/1‑76 (MQ=11)
ggcTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGaa < 2:1916681/75‑1 (MQ=11)
cgcTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGaa < 2:3632937/76‑1 (MQ=11)
cTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCACTACATTGCAGAAtt > 1:827788/1‑76 (MQ=14)
cTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAAtt > 1:825807/1‑76 (MQ=11)
cTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAAtt < 1:998668/76‑1 (MQ=14)
ttGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAAtttt < 2:4615537/76‑1 (MQ=14)
ttGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAAtttt > 2:264056/1‑76 (MQ=14)
ttGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAAtttt < 2:1528484/76‑1 (MQ=255)
ttGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAAtttt < 1:311240/76‑1 (MQ=255)
gtGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAAtttt < 2:4618091/75‑1 (MQ=14)
tGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTc < 1:716049/76‑1 (MQ=14)
tGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTc < 1:1428122/76‑1 (MQ=14)
gTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCg < 1:2311922/76‑1 (MQ=14)
tttATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGt > 2:1167363/1‑76 (MQ=14)
tttATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGt < 2:2137651/76‑1 (MQ=14)
tttATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGt > 2:2276886/1‑76 (MQ=14)
ttATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGTa < 2:2323118/76‑1 (MQ=255)
tATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTTGTAg > 2:3832919/1‑76 (MQ=14)
tATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGTAg > 2:1716972/1‑76 (MQ=14)
tATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGTAg < 2:2312649/76‑1 (MQ=14)
tATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGTAg < 1:4616829/76‑1 (MQ=17)
tATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGTAg < 1:4021273/76‑1 (MQ=17)
aTGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGTAgg > 2:3226083/1‑76 (MQ=17)
aTGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGTAgc > 2:4727743/1‑75 (MQ=14)
gCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGTAGGcc < 2:459601/76‑1 (MQ=255)
gCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGTAGGcc < 2:2236028/76‑1 (MQ=255)
gCCGGAGGCGTCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGTAGGcc < 2:2764954/76‑1 (MQ=17)
cGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGTAGGCCTg > 1:1930557/1‑76 (MQ=17)
||
ACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGCGGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAATACATTGCAGAATTTTCGTAGGCCTG > NC_000913/3703534‑3703669
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
